The plant cell wall is an extremely complicated natural nanoscale structure composed of cellulose microfibrils embedded in a matrix of noncellulosic polysaccharides,further reinforced by the phenolic compound lignins ...The plant cell wall is an extremely complicated natural nanoscale structure composed of cellulose microfibrils embedded in a matrix of noncellulosic polysaccharides,further reinforced by the phenolic compound lignins in some cell types.Such a network formed by the interactions of multiscale polymers actually reflects functional form of the cell wall to meet the requirements of plant cell functionalization.Therefore,how plants assemble cell wall functional structure is fundamental in plant biology and critical for crop trait formation and domestication as well.Due to the lack of effective analytical techniques to characterize this fundamental but complex network,it remains difficult to establish direct links between cell-wall genes and phenotypes.The roles of plant cell walls are often underestimated as indirect.Over the past decades,many genes involved in cell wall biosynthesis,modification,and remodeling have been identified.The application of a variety of state-of-the-art techniques has made it possible to reveal the fine cell wall networks and polymer interactions.Hence,many exciting advances in cell wall biology have been achieved in recent years.This review provides an updated overview of the mechanistic and conceptual insights in cell wall functionality,and prospects the opportunities and challenges in this field.展开更多
Vitamin E is an essential micronutrient that is abundant in peanut seeds.However,the absence of a rapid and reliable method for determining its content has impeded advancements in peanut quality improvement.In this st...Vitamin E is an essential micronutrient that is abundant in peanut seeds.However,the absence of a rapid and reliable method for determining its content has impeded advancements in peanut quality improvement.In this study,we developed an efficient ultra-performance liquid chromatography variable wavelength detector(UPLCvwd)method for quantifying vitamin E content in peanut seeds,capable of detecting four tocopherols and four tocotrienols.Compared to traditional methods,this approach is simpler,more efficient,and highly accurate.By comparing two sample preparation techniques,it was found that slicing better reflects the true vitamin E content than grinding,as it minimizes losses caused by mechanical pressure.The method demonstrated robust stability and accuracy in both repeatability tests and spiked recovery tests,showing no significant differences compared to the national standard method.The study revealed that the cotyledons of peanuts are the primary storage site for vitamin E,being rich inγ-andα-tocopherols,which together account for over 90% of the total vitamin E content.In contrast,the vitamin E content in the seed coat is considerably lower.Therefore,the optimized detection method minimizes seed coat interference during sample preparation,ensuring the accuracy of the results.In summary,the UPLC-vwd method developed in this study is a promising tool for determining vitamin E content and supports the improvement of peanut quality.展开更多
To develop better varieties for farmers and to increase overall agricultural productivity, Monsanto Company has continued to lead innovations in plant biotech, breeding and molecular breeding. In Molecular breeding, non-
Germplasm resource innovation is a crucial factor for cultivar development,particularly within the context of hybrid rice breeding based on the three-line system.Quan 9311A,a cytoplasmic male sterile(CMS)line,has been...Germplasm resource innovation is a crucial factor for cultivar development,particularly within the context of hybrid rice breeding based on the three-line system.Quan 9311A,a cytoplasmic male sterile(CMS)line,has been successfully cultivated using rice restoration materials and extensively employed as a female parent in hybrid breeding program in China.This line was developed by crossing the CMS line Zhong 9A with a two-line restorer line 93-11,with the intention of eliminating the restoring ability of 93-11 while retaining the sterility gene WA352c from Zhong 9A.Quan 9311A effectively amalgamates the most favorable agronomic traits from both parental lines.In this study,the relationship between phenotypic characteristics and the known functional genes of Quan 9311A were analyzed using the rice genome navigation technology based on whole-genome sequencing.The findings revealed that Quan 9311A harbors multiple superior alleles from both 93-11 and Zhong 9A,providing exceptional agronomic traits that are unavailable in earlier CMS lines.Despite the removal of the fertility restorer gene Rf3 from 93-11,numerous chromosomal segments from 93-11 persist in the Quan 9311A genome.Furthermore,the hybrid rice Quanyousimiao(QYSM)and the restorer line Wushansimiao(WSSM)were used as examples to illustrate the important role of Quan 9311A as the female parent in heterosis.It was found that QYSM carries a great number of superior alleles,which accounts for its high grain yield and wide adaptability.These insights not only advanced the utilization of hybrid rice pairing groups but also provided guidance for future breeding endeavors.The study introduced innovative concepts to further integrate genomics with traditional breeding techniques.Ultimately,Quan 9311A signified a significant milestone in rice breeding technology,opening up novel avenues for hybrid rice development.展开更多
By analyzing the gap between China and foreign countries in fine wool production, combined with the practical experience of fine woolproduction, the application effects of sheep clothing full coverage technology, mech...By analyzing the gap between China and foreign countries in fine wool production, combined with the practical experience of fine woolproduction, the application effects of sheep clothing full coverage technology, mechanical shearing technology, wool grading and collection technology, scale packaging technology and standardized shearing environment control technique were evaluated, in order to provide reference for popularization and application of fine wool production.展开更多
The fish brain is crucial for adjusting to environmental changes.Metabolic changes play a vital role in the adaptation to salinity change in aquatic animals.However,few studies have evaluated the responses of the fish...The fish brain is crucial for adjusting to environmental changes.Metabolic changes play a vital role in the adaptation to salinity change in aquatic animals.However,few studies have evaluated the responses of the fish brain to salinity changes.To evaluate the response to various salinities,spotted scat(Scatophagus argus)was cultured in water with salinity levels of 5(low salinity:LS),25(control group:Ctrl),and 35(high salinity group:HS)for 22 days.The brain transcriptome was analyzed.In total,1698 differentially expressed genes(DEGs)were identified between the HS and Ctrl groups,and 841 DEGs were identified between the LS and Ctrl groups.KEGG analysis showed that the DEGs in the HS vs.Ctrl comparison were involved in steroid biosynthesis,terpenoid backbone biosynthesis,fatty acid biosynthesis,ascorbate and aldarate metabolism,other types of O-glycan biosynthesis,and fatty acid metabolism.Glyoxylate and dicarboxylate metabolism,one carbon pool by folate,steroid biosynthesis,and cysteine and methionine metabolism were significantly enriched in the LS vs.Ctrl comparison.Additionally,the genes related to metabolism(acc,fas,hmgcr,hmgcs1,mvd,soat1,nsdhl,sqle,cel,fdft1,dnmt3a and mtr)were significantly up-regulated in the HS vs.Ctrl comparison.The genes related to metabolism(lipa,sqle,acc,fas,bhmt,mpst,dnmt3a,mtr,hao2,LOC111225351 and hmgcs1)were significantly up-regulated,while hmgcr and soat1 were significantly down-regulated in the LS vs.Ctrl compparison.These results suggest that salinity stress affects signaling pathways and genes’expressions involved in metabolic processes in the brain,and the differences in metabolism play an important role in adaptation to hyperhaline or hypohaline environments in spotted scat.This research provides a comprehensive overview of transcriptional changes in the brain under hyperhaline or hypohaline conditions,which is helpful to understand the mechanisms underlying salinity adaptation in euryhaline fishes.展开更多
Bud dormancy facilitates the survival of meristems under harsh environmental conditions.To elucidate how molecular responses to chilling accumulation controlling dormancy in peach buds,chromatin immunoprecipitation se...Bud dormancy facilitates the survival of meristems under harsh environmental conditions.To elucidate how molecular responses to chilling accumulation controlling dormancy in peach buds,chromatin immunoprecipitation sequencing to identify the H3K27me3 modifications and RNA sequencing of two peach cultivars with pronounced differences in chilling requirement were carried out,the results showed that genes associated with abscisic acid and gibberellic acid signal pathways play key roles in dormancy regulation.The results demonstrated that peach flower bud differentiation occurred continuously in both cultivars during chilling accumulation,which was correlated with the transcript abundance of key genes involved in phytohormone metabolism and flower bud development under adverse conditions.The more increased strength in high chillingrequirement cultivar along with the chilling accumulation at the genome-wide level.The function of the dormancy-associated MADS-box gene PpDAM6 was identified,which is involved in leaf bud break in peach and flower development in transgenic Nicotiana tabacum(NC89).In addition,PpDAM6 was positively regulated by PpCBF,and the genes of putative dormancy-related and associated with metabolic pathways were proposed.Taken together,these results constituted a theoretical basis for elucidating the regulation of peach bud dormancy transition.展开更多
Alfalfa(Medicago sativa L.)is a widely cultivated leguminous forage crop around the world.It is known as the“Queen of forages”and serves as an important source of high-quality feed for ruminants(Meng et al.,2017)due...Alfalfa(Medicago sativa L.)is a widely cultivated leguminous forage crop around the world.It is known as the“Queen of forages”and serves as an important source of high-quality feed for ruminants(Meng et al.,2017)due to its high nutritional value,broad environmental adaptability,and symbiotic nitrogen fixation capacity.Despite these advantages,the progress of molecular breeding in alfalfa has lagged behind that of major cereal crops due to its complex genetic background and polyploidy nature.展开更多
The teleost Scatophagus argus is a species whose females grows faster than males.Growth hormone(gh)mRNA abundance in females pituitary is higher than that in males;however the mechanism underlining such differential i...The teleost Scatophagus argus is a species whose females grows faster than males.Growth hormone(gh)mRNA abundance in females pituitary is higher than that in males;however the mechanism underlining such differential is still unknown.Growth hormone(GH)is tightly associated with GH-releasing hormone(Ghrh)in vertebrates.In this study,Ghrh gene(ghrh)and its receptor gene,ghrhr,were isolated from S.argus.Tissue expression analysis showed that ghrh and ghrhr were mainly expressed in hypothalamus while ghrhr was expressed in pituitary and gh was predominantly expressed in pituitary.Twenty cultured S.argus individuals were used to compare ghrh,ghrhr and gh mRNA abundances,120 g and 181 g average weight for male(n=11)and female(n=9),respectively.Real-time PCR indicated that the ghrh and ghrhr mRNA abundances in male hypothalamus were significantly higher than those in female hypothalamus while that of gh mRNA abundance was significantly higher in female pituitary than in male pituitary.The ghrh and ghrhr mRNA abundances were significantly up-regulated in female hypothalamus 3 h after injection of 0.1 mg kg^-1 body weight Ghrh while pituitary ghrhr and gh mRNA abundances were not affected.In female hypothalamus,ghrh and ghrhr m RNA abundances were not affected at 6 h post-injection of 4 mg kg^-1 body weight 17α-methyltes-tosterone(17α-MT)or 17β-Estradiol(E2).In female pituitary,ghrhr m RNA abundance was down-regulated by 17α-MT while that of gh m RNA abundance was up-regulated by E2.Our findings indicated that E2,rather than Ghrh,plays an important role in up-regulating the expression of gh in female S.argus,which should aid to understand the sexual dimorphism of teleost growth.展开更多
Grain size is one of the most important factors affecting rice grain quality and yield,and attracts great attention from molecular biologists and breeders.In this study,we engineered a CRISPR/Cas9 system targeting the...Grain size is one of the most important factors affecting rice grain quality and yield,and attracts great attention from molecular biologists and breeders.In this study,we engineered a CRISPR/Cas9 system targeting the miR396 recognition site of the rice GS2 gene,which encodes growth-regulating factor 4(OsGRF4)and regulates multiple agronomic traits including grain size,grain quality,nitrogen use efficiency,abiotic stress response,and seed shattering.In contrast to most previous genome editing efforts in which indel mutations were chosen to obtain null mutants,a mutant named GS2^(E) carrying an in-frame 6-bp deletion and 1-bp substitution within the miR396-targeted sequence was identified.GS2^(E) plants showed increased expression of GS2 in consistent with impaired repression by miR396.As expected,the gain-of-function GS2^(E) mutant exhibited multiple beneficial traits including increased grain size and yield and bigger grain length/width ratio.Thousand grain weight and grain yield per plant of GS2^(E) plants were increased by 23.5%and 10.4%,respectively.These improved traits were passed to hybrids in a semidominant way,suggesting that the new GS2^(E) allele has great potential in rice improvement.Taken together,we report new GS2 germplasm and describe a novel gene-editing strategy that can be widely employed to improve grain size and yield in rice.This trait-improvement strategy could be applied to other genes containing miRNA target sites,in particular the conserved miR396-GRF/GIF module that governs plant growth,development and environmental response.展开更多
Analysis of genetic progress for lodging-related traits provides important information for further improvement of lodging resistance.Forty winter wheat cultivars widely grown in the Yellow-Huai River Valleys Winter Wh...Analysis of genetic progress for lodging-related traits provides important information for further improvement of lodging resistance.Forty winter wheat cultivars widely grown in the Yellow-Huai River Valleys Winter Wheat Zone(YHWZ)of China during the period of 1964–2015 were evaluated for several lodging-related traits in three cropping seasons.Plant height,height at center of gravity,length of the basal second internode,and lodging index decreased significantly in this period,and the average annual genetic gains for these traits were–0.50 cm or–0.62%,–0.27 cm or–0.60%,–0.06 cm or–0.63%,and–0.01 or–0.94%,respectively.Different from other traits,stem strength showed a significant increasing trend with the breeding period,and the annual genetic gains were 0.03 N or 0.05%.Correlation analysis showed that lodging index was positively correlated with plant height,height at center of gravity,and length of the basal second internode,but negatively correlated with stem strength.Meanwhile,significantly positive correlations were observed between plant height,height at center of gravity,and length of the basal first and second internodes.By comparison with the wild types,dwarfing genes had significant effects on all lodging-related traits studied except for length of the basal first internode and stem strength.Principle component analysis demonstrated that plant height and stem strength were the most important factors influencing lodging resistance.Clustering analysis based on the first two principle components further indicated the targets of wheat lodging-resistant breeding have changed from reducing plant height to strengthening stem strength over the breeding periods.This study indicates that the increase of stem strength is vital to improve lodging resistance in this region under the high-yielding condition when plant height is in an optimal range.展开更多
The gene Fhb1 has been used in many countries to improve wheat Fusarium head blight(FHB) resistance. To make better use of this gene in the Yellow-Huai River Valleys Winter Wheat Zone(YHWZ), the most important wheat-p...The gene Fhb1 has been used in many countries to improve wheat Fusarium head blight(FHB) resistance. To make better use of this gene in the Yellow-Huai River Valleys Winter Wheat Zone(YHWZ), the most important wheat-producing region of China, it is desirable to elucidate its effects on FHB resistance and agronomic traits in different genetic backgrounds. Based on a diagnostic marker for Fhb1, six BC2 populations were developed by crossing dwarf-male-sterile(DMS)-Zhoumai 16 to three Fhb1 donors(Ningmai 9, Ningmai 13, and Jianyang 84) and backcrossing to Zhoumai 16 and Zhoumai16’s derivative cultivars(Lunxuan 136 and Lunxuan 13) using marker-assisted backcross breeding. The progenies were assessed for FHB resistance and major agronomic traits.The Fhb1 alleles were identified using the gene-specific molecular marker. The plants with the Fhb1-resistant genotype(Fhb1-R) in these populations showed significantly fewer infected spikelets than those with the Fhb1-susceptible genotype(Fhb1-S). When Lunxuan 136 was used as the recurrent parent, Fhb1-R plants showed significantly fewer infected spikelets per spike than Fhb1-R plants produced using Lunxuan 13 as the recurrent parent, indicating that the genetic backgrounds of Fhb1 influence the expression of FHB resistance. Fhb1-R plants from the DMS-Zhoumai 16/Ningmai 9//Zhoumai 16/3/Lunxuan 136 population showed the highest FHB resistance among the six populations and a significantly higher level of FHB resistance than the moderately susceptible control Huaimai 20. No significant phenotypic differences between Fhb1-R and Fhb1-S plants were observed for the eight agronomic traits investigated. These results suggest that it is feasible to improve FHB resistance of winter wheat withoutreducing yield potential by introgressing Fhb1 resistance allele into FHB-susceptible cultivars in the YHWZ.展开更多
Pears with red skin are attractive to consumers and provide additional health benefits.Identification of the gene(s)responsible for skin coloration can benefit cultivar selection and breeding.The use of QTL-seq,a bulk...Pears with red skin are attractive to consumers and provide additional health benefits.Identification of the gene(s)responsible for skin coloration can benefit cultivar selection and breeding.The use of QTL-seq,a bulked segregant analysis method,can be problematic when heterozygous parents are involved.The present study modified the QTL-seq method by introducing a|Δ(SNP-index)|parameter to improve the accuracy of mapping the red skin trait in a group of highly heterozygous Asian pears.The analyses were based on mixed DNA pools composed of 28 red-skinned and 27 green-skinned pear lines derived from a cross between the‘Mantianhong’and‘Hongxiangsu’red-skinned cultivars.The‘Dangshansuli’cultivar genome was used as reference for sequence alignment.An average single-nucleotide polymorphism(SNP)index was calculated using a sliding window approach(200-kb windows,20-kb increments).Nine scaffolds within the candidate QTL interval were in the fifth linkage group from 111.9 to 177.1 cM.There was a significant linkage between the insertions/deletions and simple sequence repeat markers designed from the candidate intervals and the red/green skin(R/G)locus,which was in a 582.5-kb candidate interval that contained 81 predicted protein-coding gene models and was composed of two subintervals at the bottom of the fifth chromosome.The ZFRI 130-16,In2130-12 and In2130-16 markers located near the R/G locus could potentially be used to identify the red skin trait in Asian pear populations.This study provides new insights into the genetics controlling the red skin phenotype in this fruit.展开更多
Knowledge of allelic frequencies at loci associated with kernel weight and effects on kernel weight-related traits is crucial for yield improvement in wheat. Kernel weight-related traits were evaluated in 200 Chinese ...Knowledge of allelic frequencies at loci associated with kernel weight and effects on kernel weight-related traits is crucial for yield improvement in wheat. Kernel weight-related traits were evaluated in 200 Chinese winter wheat cultivars(lines) grown at the Xinxiang Experimental Station, Chinese Academy of Agricultural Sciences, Xinxiang in Henan Province, for three consecutive years from 2014 to 2016. Alleles associated with kernel weight at nine loci, TaCKX6-D1, TaCwi-A1, TaCWI-4A, TaGS1a, TaGS5-A1, TaGS3-3A, TaGW2-6A, TaSus2-2B, and TaTGW6-A1, were determined for all cultivars(lines). ANOVA showed that genotypes, years and their interactions had significant effects on thousand-kernel weight(TKW), kernel length(KL) and kernel width(KW). The overall mean frequencies of alleles conferring high and low TKW at the nine loci were 65.9% and 33.4%, with the ranges of 37.0%–85.0% and 13.5%–63.0% for single loci. The frequencies of high-TKW alleles were over 50.0% at eight of the loci. Genotypes at each locus with the high-TKW allele had higher TKW than those with the low-TKW allele. The high-TKW allele Hap-H at the TaSus2-2B locus can be preferably used to increase grain yield due to its high TKW(49.32 g). A total of 18 main allelic combinations(ACs) at nine loci were detected. Three ACs(AC1–AC3) had significantly higher TKW than AC6 with high-TKW alleles at all nine loci even though they contained some low-TKW alleles. This indicated that other loci controlling kernel weight were present in the high-TKW cultivars. This work provides important information for parental selection and marker-assisted selection for breeding.展开更多
Many different chicken breeds are found around the world,their features vary among them,and they are valuable resources.Currently,there is a huge lack of knowledge of the genetic determinants responsible for phenotypi...Many different chicken breeds are found around the world,their features vary among them,and they are valuable resources.Currently,there is a huge lack of knowledge of the genetic determinants responsible for phenotypic and biochemical properties of these breeds of chickens.Understanding the underlying genetic mechanisms that explain across-breed variation can help breeders develop improved chicken breeds.The whole-genomes of 140 chickens from 7 Shandong native breeds and 20 introduced recessive white chickens from China were re-sequenced.Comparative population genomics based on autosomal single nucleotide polymorphisms(SNPs)revealed geographically based clusters among the chickens.Through genome-wide scans for selective sweeps,we identified thyroid stimulating hormone receptor(TSHR,reproductive traits,circadian rhythm),erythrocyte membrane protein band 4.1 like 1(EPB41L1,body size),and alkylglycerol monooxygenase(AGMO,aggressive behavior),as major candidate breed-specific determining genes in chickens.In addition,we used a machine learning classification model to predict chicken breeds based on the SNPs significantly associated with recourse characteristics,and the prediction accuracy was 92%,which can effectively achieve the breed identification of Laiwu Black chickens.We provide the first comprehensive genomic data of the Shandong indigenous chickens.Our analyses revealed phylogeographic patterns among the Shandong indigenous chickens and candidate genes that potentially contribute to breed-specific traits of the chickens.In addition,we developed a machine learning-based prediction model using SNP data to identify chicken breeds.The genetic basis of indigenous chicken breeds revealed in this study is useful to better understand the mechanisms underlying the resource characteristics of chicken.展开更多
Sillago sihama,commonly known as silver sillago,is considered as an economically important fish species in China.It is sensitive to hypoxia stress in the larval stage,and the mechanism has not been understood thorough...Sillago sihama,commonly known as silver sillago,is considered as an economically important fish species in China.It is sensitive to hypoxia stress in the larval stage,and the mechanism has not been understood thoroughly.In this study,we investigated the transcriptome change in heart tissues under hypoxia stress.The fish were divided into four groups,including 1 h of hypoxia(hypoxia1h,dissolved oxygen(DO)=1.5±0.1 mg L^(−1)),4h of hypoxia(hypoxia4h,DO=1.5±0.1 mg L^(−1)),4h of reoxygen(reoxygen4h,DO=8.0±0.2 mg L^(−1))after 4h of hypoxia(DO=1.5 mg L^(−1))and normoxia or control(DO=8.0±0.2 mg L^(−1))groups.The results showed that a total of 3068 genes were identified as differentially expressed genes(DEGs)based on the criteria∣log2(Fold change)∣>1.0 and adjusted P-value<0.05.A total of 7761141 and 1151 DEGs were obtained from hypoxia1h,hypoxia4h and reoxygen4h groups,respectively.The enrichment pathway analysis showed that the DEGs were significantly enriched in ribosome biogenesis in eukaryotes,retinol metabolism,DNA replication and the oxidative phosphorylation(OXPHOS)pathways.Thirteen DEGs from the RNA-seq results were validated by quantitative real-time polymerase chain reaction(qRT-PCR).These candidate genes are considered as important regulatory factors involved in the hypoxia stress response in S.sihama.展开更多
Grain size influences the yield and quality of rice(Oryza sativa L.),and grain length is one of the component traits of grain size.In this study,a near-isogenic line LB3 with long grain size was constructed using japo...Grain size influences the yield and quality of rice(Oryza sativa L.),and grain length is one of the component traits of grain size.In this study,a near-isogenic line LB3 with long grain size was constructed using japonica rice cultivar 02428,with short grain size,as the recipient parent and indica rice cultivar ZYX,with long grain size,as the donor parent,by multi-generation backcrossing and selfing.BSA-seq was used for preliminary QTL mapping and InDel markers were developed to fine map the locus.The major QTL,tentatively named qGL10,for grain length was located in a 128.45 kb region of chromosome 10.Combined with haplotype analysis of rice varieties,expression pattern analysis of candidate genes suggested LOC_Os10g39130(OsMADS56)as a candidate gene.Sequence alignment of OsMADS56 in 02428 and LB3 revealed that there were 15 SNPs in the promoter region and four in the coding region.Further haplotype analysis suggested that SNP9(G/A)located in the TGTCACA motif might account for the different expression levels of OsMADS56 in 02428 and LB3.These results lay a foundation for the application of qGL10 in molecular breeding of new rice varieties.展开更多
Peanut cultivation in China spans various ecological zones, each with unique environmental conditions. Identifying suitable peanut varieties for these regions has been challenging due to significant phenotypic variati...Peanut cultivation in China spans various ecological zones, each with unique environmental conditions. Identifying suitable peanut varieties for these regions has been challenging due to significant phenotypic variations observed across environments. This study, based on a comprehensive analysis of 256 peanut varieties, selected nine representative varieties(Huayu23, Yuanza9102, Silihong, Wanhua2, Zhonghua6, Zhonghua16, Zhonghua21,Zhonghua215, Zhonghua24) for cultivation in five distinct ecological zones including Chengdu, Hefei, Nanjing,Shijiazhuang, and Wuhan. The yield and quality related phenotypic traits of these varieties were thoroughly assessed, revealing a complex interplay between genetic and environmental factors. Principal component analysis(PCA) effectively distinguished varieties based on yield and quality traits. Strong correlations were observed between specific traits, such as seed size and quality components. The G × E interaction was evident, as some varieties consistently performed better in certain environments. Varieties with lower coefficient of variation(CV)values exhibited stable trait expression, making them reliable choices for broad cultivation. In contrast, varieties with higher CV values displayed greater sensitivity to environmental fluctuations, potentially due to specific genetic factors. Two high oleic acid varieties, Zhonghua24 and Zhonghua215, demonstrated remarkable stability in oleic acid content across diverse environments, suggesting the presence of genetic mechanisms that buffer against environmental variations. Overall, this study underscores the importance of selecting peanut varieties based on their adaptability and performance in specific ecological zones. These findings provide valuable insights for peanut breeders and farmers, facilitating informed decisions for improved crop production and quality.展开更多
Optimizing the profile and quantity of fatty acids in rapeseed(Brassica napus L.) is critical for maximizing the value of edible oil and biodiesel. However, selection of these complex seed quality traits is difficult ...Optimizing the profile and quantity of fatty acids in rapeseed(Brassica napus L.) is critical for maximizing the value of edible oil and biodiesel. However, selection of these complex seed quality traits is difficult before haplotypes controlling their contents are identified. To efficiently identify genetic loci influencing these traits and underlying candidate genes and networks, we performed a genome-wide association study(GWAS) of eight seed quality traits(oil and protein content, palmitic, stearic, oleic, linoleic, eicosenoic and erucic acids content). The GWAS population comprised 370 diverse accessions, which were phenotyped in five environments and genotyped using 60K SNP arrays. The results indicated that oil and protein contents generally showed negative correlations, while fatty acid contents showed positive or negative correlations,with palmitic and erucic acid contents directly affecting oil content. Seven SNPs on five chromosomes were associated with both seed oil and protein content, and five genes orthologous to genes in Arabidopsis thaliana were predicted as candidates. From resequencing data, besides known haplotypes in Bna A.FAE1.a and Bna C.FAE1.a, three accessions harboring a new haplotype conferring moderate erucic acid content were identified. Interestingly, in a haplotype block, one haplotype was associated with high palmitic acid content and low oil content, while the others showed the reverse effects. This finding was consistent with a negative correlation between palmitic acid and oil contents, suggesting historical selection for high oil content. The identification by this study of genetic variation and complex correlations of eight seed quality traits may be beneficial for crop selection strategies.展开更多
Global warming has become a global challenge having dire consequences on different aspects of the environment due to the melting of glaciers, excess carbon dioxide (CO<sub>2</sub>), and excess warming of w...Global warming has become a global challenge having dire consequences on different aspects of the environment due to the melting of glaciers, excess carbon dioxide (CO<sub>2</sub>), and excess warming of water bodies among others. At a faster pace recently, climate change is affecting the marine environment, causing numerous alterations. Here, we address its consequences and the numerous alterations, which are more vital for researchers and global agencies to advocate more on why it’s essential to lessen the impact of climate change. Our review showed that the impacts of climate change are articulated at several stages of the marine ecosystem where it affects the inhabitants and their habitats. In response to climate change (ocean warming) marine species shift their latitudinal range to find suitable conditions leading to the redistribution of species. In addition, we found that growth reduction, sub-optimal behaviors, and reduced immune-competence of marine organisms, are as a result of thermal stress due to climate change. Also, the periodic changes in temperature above or below the optimum have a meditative reproductive effect on marine species, including fish. Finally, we discovered that due to higher water temperatures, several diseases showcase greater virulence in the sense that the marine species become less resistant to these diseases due to stress, increased virulence stimuli, or increased transmission.展开更多
基金supported by grants from the National Key Research and Development Program of China(2021YFD2200502_3)the National Natural Science Foundation of China(32400247 and 32401906)the CAS Project for Young Scientists in Basic Research(YSBR-119)。
文摘The plant cell wall is an extremely complicated natural nanoscale structure composed of cellulose microfibrils embedded in a matrix of noncellulosic polysaccharides,further reinforced by the phenolic compound lignins in some cell types.Such a network formed by the interactions of multiscale polymers actually reflects functional form of the cell wall to meet the requirements of plant cell functionalization.Therefore,how plants assemble cell wall functional structure is fundamental in plant biology and critical for crop trait formation and domestication as well.Due to the lack of effective analytical techniques to characterize this fundamental but complex network,it remains difficult to establish direct links between cell-wall genes and phenotypes.The roles of plant cell walls are often underestimated as indirect.Over the past decades,many genes involved in cell wall biosynthesis,modification,and remodeling have been identified.The application of a variety of state-of-the-art techniques has made it possible to reveal the fine cell wall networks and polymer interactions.Hence,many exciting advances in cell wall biology have been achieved in recent years.This review provides an updated overview of the mechanistic and conceptual insights in cell wall functionality,and prospects the opportunities and challenges in this field.
基金supported by the project of the development for highquality seed industry of Hubei province(HBZY2023B003)the Key Area Research and Development Program of Hubei Province(2021BBA077)the Agricultural Science and Technology Innovation Program.
文摘Vitamin E is an essential micronutrient that is abundant in peanut seeds.However,the absence of a rapid and reliable method for determining its content has impeded advancements in peanut quality improvement.In this study,we developed an efficient ultra-performance liquid chromatography variable wavelength detector(UPLCvwd)method for quantifying vitamin E content in peanut seeds,capable of detecting four tocopherols and four tocotrienols.Compared to traditional methods,this approach is simpler,more efficient,and highly accurate.By comparing two sample preparation techniques,it was found that slicing better reflects the true vitamin E content than grinding,as it minimizes losses caused by mechanical pressure.The method demonstrated robust stability and accuracy in both repeatability tests and spiked recovery tests,showing no significant differences compared to the national standard method.The study revealed that the cotyledons of peanuts are the primary storage site for vitamin E,being rich inγ-andα-tocopherols,which together account for over 90% of the total vitamin E content.In contrast,the vitamin E content in the seed coat is considerably lower.Therefore,the optimized detection method minimizes seed coat interference during sample preparation,ensuring the accuracy of the results.In summary,the UPLC-vwd method developed in this study is a promising tool for determining vitamin E content and supports the improvement of peanut quality.
文摘To develop better varieties for farmers and to increase overall agricultural productivity, Monsanto Company has continued to lead innovations in plant biotech, breeding and molecular breeding. In Molecular breeding, non-
基金This study was funded by the National Natural Science Foundation of China(Grant No.32001516)Shanghai Agriculture Applied Technology Development Program,China(Grant No.X20190103)Rice Industry of China Agriculture Research System(Grant No.CARS-01-03).
文摘Germplasm resource innovation is a crucial factor for cultivar development,particularly within the context of hybrid rice breeding based on the three-line system.Quan 9311A,a cytoplasmic male sterile(CMS)line,has been successfully cultivated using rice restoration materials and extensively employed as a female parent in hybrid breeding program in China.This line was developed by crossing the CMS line Zhong 9A with a two-line restorer line 93-11,with the intention of eliminating the restoring ability of 93-11 while retaining the sterility gene WA352c from Zhong 9A.Quan 9311A effectively amalgamates the most favorable agronomic traits from both parental lines.In this study,the relationship between phenotypic characteristics and the known functional genes of Quan 9311A were analyzed using the rice genome navigation technology based on whole-genome sequencing.The findings revealed that Quan 9311A harbors multiple superior alleles from both 93-11 and Zhong 9A,providing exceptional agronomic traits that are unavailable in earlier CMS lines.Despite the removal of the fertility restorer gene Rf3 from 93-11,numerous chromosomal segments from 93-11 persist in the Quan 9311A genome.Furthermore,the hybrid rice Quanyousimiao(QYSM)and the restorer line Wushansimiao(WSSM)were used as examples to illustrate the important role of Quan 9311A as the female parent in heterosis.It was found that QYSM carries a great number of superior alleles,which accounts for its high grain yield and wide adaptability.These insights not only advanced the utilization of hybrid rice pairing groups but also provided guidance for future breeding endeavors.The study introduced innovative concepts to further integrate genomics with traditional breeding techniques.Ultimately,Quan 9311A signified a significant milestone in rice breeding technology,opening up novel avenues for hybrid rice development.
基金Supported by Special Fund for Agricultural Science and Technology Innovation Project in Gansu Province(GNCX-2014-48)
文摘By analyzing the gap between China and foreign countries in fine wool production, combined with the practical experience of fine woolproduction, the application effects of sheep clothing full coverage technology, mechanical shearing technology, wool grading and collection technology, scale packaging technology and standardized shearing environment control technique were evaluated, in order to provide reference for popularization and application of fine wool production.
基金funded by the National Natural Science Foundation of China(Nos.31972775 and 32172971).
文摘The fish brain is crucial for adjusting to environmental changes.Metabolic changes play a vital role in the adaptation to salinity change in aquatic animals.However,few studies have evaluated the responses of the fish brain to salinity changes.To evaluate the response to various salinities,spotted scat(Scatophagus argus)was cultured in water with salinity levels of 5(low salinity:LS),25(control group:Ctrl),and 35(high salinity group:HS)for 22 days.The brain transcriptome was analyzed.In total,1698 differentially expressed genes(DEGs)were identified between the HS and Ctrl groups,and 841 DEGs were identified between the LS and Ctrl groups.KEGG analysis showed that the DEGs in the HS vs.Ctrl comparison were involved in steroid biosynthesis,terpenoid backbone biosynthesis,fatty acid biosynthesis,ascorbate and aldarate metabolism,other types of O-glycan biosynthesis,and fatty acid metabolism.Glyoxylate and dicarboxylate metabolism,one carbon pool by folate,steroid biosynthesis,and cysteine and methionine metabolism were significantly enriched in the LS vs.Ctrl comparison.Additionally,the genes related to metabolism(acc,fas,hmgcr,hmgcs1,mvd,soat1,nsdhl,sqle,cel,fdft1,dnmt3a and mtr)were significantly up-regulated in the HS vs.Ctrl comparison.The genes related to metabolism(lipa,sqle,acc,fas,bhmt,mpst,dnmt3a,mtr,hao2,LOC111225351 and hmgcs1)were significantly up-regulated,while hmgcr and soat1 were significantly down-regulated in the LS vs.Ctrl compparison.These results suggest that salinity stress affects signaling pathways and genes’expressions involved in metabolic processes in the brain,and the differences in metabolism play an important role in adaptation to hyperhaline or hypohaline environments in spotted scat.This research provides a comprehensive overview of transcriptional changes in the brain under hyperhaline or hypohaline conditions,which is helpful to understand the mechanisms underlying salinity adaptation in euryhaline fishes.
基金supported by the National Natural Science Foundation of China(Grant No.32001996)Central Publicinterest Scientific Institution Basal Research Fund(Grant No.Y2022QC23)+2 种基金Agricultural Science and Technology Innovation Program(Grant No.CAAS-ASTIP-2021-ZFRI-01)the Crop Germplasm Resources Conservation Project(Grant No.2016NWB041)the Science and Technology Major Project of Yunnan(Gene mining and breeding of peach at highaltitude and low-latitude regions)。
文摘Bud dormancy facilitates the survival of meristems under harsh environmental conditions.To elucidate how molecular responses to chilling accumulation controlling dormancy in peach buds,chromatin immunoprecipitation sequencing to identify the H3K27me3 modifications and RNA sequencing of two peach cultivars with pronounced differences in chilling requirement were carried out,the results showed that genes associated with abscisic acid and gibberellic acid signal pathways play key roles in dormancy regulation.The results demonstrated that peach flower bud differentiation occurred continuously in both cultivars during chilling accumulation,which was correlated with the transcript abundance of key genes involved in phytohormone metabolism and flower bud development under adverse conditions.The more increased strength in high chillingrequirement cultivar along with the chilling accumulation at the genome-wide level.The function of the dormancy-associated MADS-box gene PpDAM6 was identified,which is involved in leaf bud break in peach and flower development in transgenic Nicotiana tabacum(NC89).In addition,PpDAM6 was positively regulated by PpCBF,and the genes of putative dormancy-related and associated with metabolic pathways were proposed.Taken together,these results constituted a theoretical basis for elucidating the regulation of peach bud dormancy transition.
基金supported by the National Natural Science Foundation of China(32325035)the Earmarked fund for CARS(CARS-34).
文摘Alfalfa(Medicago sativa L.)is a widely cultivated leguminous forage crop around the world.It is known as the“Queen of forages”and serves as an important source of high-quality feed for ruminants(Meng et al.,2017)due to its high nutritional value,broad environmental adaptability,and symbiotic nitrogen fixation capacity.Despite these advantages,the progress of molecular breeding in alfalfa has lagged behind that of major cereal crops due to its complex genetic background and polyploidy nature.
基金the Key Project of ‘Blue Granary Science and Technology Innovation’ of the Ministry of Science and Technology (No. SQ2018 YFD090006)the National Natural Science Foundation of China (Nos. 31702326 and 41706174)+8 种基金the Natural Science Foundation of Guangdong Province (Nos. 2016A03 0313743, 2017A030313101 and 2018B030311050)the Department of Education of Guangdong Province (Nos. 2018KTSCX090 and 2018KQNCX106)the Guangdong Provincial Special Fund For Modern Agriculture Industry Technology Innovation Teams (No. 2019KJ149)the Zhanjiang Science and Technology Bureau (No. 2016A03017)Guangdong Ocean University Natural Science Research Program (2015 and 2016)the Project of Provincial Key Platform and Major Scientific Research of Colleges and Universities in Guangdong (No. 2015KTSCX058)the Sail Projects of Guangdong (2014.1)the Marine Fishery Science and Technology Extension Projects of Guangdong (Nos. A201408A06 and A201608B01)the Program for Scientific Research Start-Up Funds of Guangdong Ocean University
文摘The teleost Scatophagus argus is a species whose females grows faster than males.Growth hormone(gh)mRNA abundance in females pituitary is higher than that in males;however the mechanism underlining such differential is still unknown.Growth hormone(GH)is tightly associated with GH-releasing hormone(Ghrh)in vertebrates.In this study,Ghrh gene(ghrh)and its receptor gene,ghrhr,were isolated from S.argus.Tissue expression analysis showed that ghrh and ghrhr were mainly expressed in hypothalamus while ghrhr was expressed in pituitary and gh was predominantly expressed in pituitary.Twenty cultured S.argus individuals were used to compare ghrh,ghrhr and gh mRNA abundances,120 g and 181 g average weight for male(n=11)and female(n=9),respectively.Real-time PCR indicated that the ghrh and ghrhr mRNA abundances in male hypothalamus were significantly higher than those in female hypothalamus while that of gh mRNA abundance was significantly higher in female pituitary than in male pituitary.The ghrh and ghrhr mRNA abundances were significantly up-regulated in female hypothalamus 3 h after injection of 0.1 mg kg^-1 body weight Ghrh while pituitary ghrhr and gh mRNA abundances were not affected.In female hypothalamus,ghrh and ghrhr m RNA abundances were not affected at 6 h post-injection of 4 mg kg^-1 body weight 17α-methyltes-tosterone(17α-MT)or 17β-Estradiol(E2).In female pituitary,ghrhr m RNA abundance was down-regulated by 17α-MT while that of gh m RNA abundance was up-regulated by E2.Our findings indicated that E2,rather than Ghrh,plays an important role in up-regulating the expression of gh in female S.argus,which should aid to understand the sexual dimorphism of teleost growth.
基金supported by the National Key Research and Development Program of China(2016YFD0102000)“Breeding of Major New Varieties of Main Grain Crops”Program(2020ABA016)from Department of Science and Technology of Hubei Province.
文摘Grain size is one of the most important factors affecting rice grain quality and yield,and attracts great attention from molecular biologists and breeders.In this study,we engineered a CRISPR/Cas9 system targeting the miR396 recognition site of the rice GS2 gene,which encodes growth-regulating factor 4(OsGRF4)and regulates multiple agronomic traits including grain size,grain quality,nitrogen use efficiency,abiotic stress response,and seed shattering.In contrast to most previous genome editing efforts in which indel mutations were chosen to obtain null mutants,a mutant named GS2^(E) carrying an in-frame 6-bp deletion and 1-bp substitution within the miR396-targeted sequence was identified.GS2^(E) plants showed increased expression of GS2 in consistent with impaired repression by miR396.As expected,the gain-of-function GS2^(E) mutant exhibited multiple beneficial traits including increased grain size and yield and bigger grain length/width ratio.Thousand grain weight and grain yield per plant of GS2^(E) plants were increased by 23.5%and 10.4%,respectively.These improved traits were passed to hybrids in a semidominant way,suggesting that the new GS2^(E) allele has great potential in rice improvement.Taken together,we report new GS2 germplasm and describe a novel gene-editing strategy that can be widely employed to improve grain size and yield in rice.This trait-improvement strategy could be applied to other genes containing miRNA target sites,in particular the conserved miR396-GRF/GIF module that governs plant growth,development and environmental response.
基金supported by the National Key Research and Development Program of China (2016YFD0101600 and 2016YFD0100102)the National Natural Science Foundation of China (31401468 and 31771881)the Innovation Team and the National Engineering Laboratory of Crop Molecular Breeding of Chinese Academy of Agricultural Sciences
文摘Analysis of genetic progress for lodging-related traits provides important information for further improvement of lodging resistance.Forty winter wheat cultivars widely grown in the Yellow-Huai River Valleys Winter Wheat Zone(YHWZ)of China during the period of 1964–2015 were evaluated for several lodging-related traits in three cropping seasons.Plant height,height at center of gravity,length of the basal second internode,and lodging index decreased significantly in this period,and the average annual genetic gains for these traits were–0.50 cm or–0.62%,–0.27 cm or–0.60%,–0.06 cm or–0.63%,and–0.01 or–0.94%,respectively.Different from other traits,stem strength showed a significant increasing trend with the breeding period,and the annual genetic gains were 0.03 N or 0.05%.Correlation analysis showed that lodging index was positively correlated with plant height,height at center of gravity,and length of the basal second internode,but negatively correlated with stem strength.Meanwhile,significantly positive correlations were observed between plant height,height at center of gravity,and length of the basal first and second internodes.By comparison with the wild types,dwarfing genes had significant effects on all lodging-related traits studied except for length of the basal first internode and stem strength.Principle component analysis demonstrated that plant height and stem strength were the most important factors influencing lodging resistance.Clustering analysis based on the first two principle components further indicated the targets of wheat lodging-resistant breeding have changed from reducing plant height to strengthening stem strength over the breeding periods.This study indicates that the increase of stem strength is vital to improve lodging resistance in this region under the high-yielding condition when plant height is in an optimal range.
基金supported by the National Key Research and Development Program of China (2016YFD0101802, 2017YFD010060)the National Natural Science Foundation of China (31771881, 31401468)the Agricultural Science and Technology Innovation Program
文摘The gene Fhb1 has been used in many countries to improve wheat Fusarium head blight(FHB) resistance. To make better use of this gene in the Yellow-Huai River Valleys Winter Wheat Zone(YHWZ), the most important wheat-producing region of China, it is desirable to elucidate its effects on FHB resistance and agronomic traits in different genetic backgrounds. Based on a diagnostic marker for Fhb1, six BC2 populations were developed by crossing dwarf-male-sterile(DMS)-Zhoumai 16 to three Fhb1 donors(Ningmai 9, Ningmai 13, and Jianyang 84) and backcrossing to Zhoumai 16 and Zhoumai16’s derivative cultivars(Lunxuan 136 and Lunxuan 13) using marker-assisted backcross breeding. The progenies were assessed for FHB resistance and major agronomic traits.The Fhb1 alleles were identified using the gene-specific molecular marker. The plants with the Fhb1-resistant genotype(Fhb1-R) in these populations showed significantly fewer infected spikelets than those with the Fhb1-susceptible genotype(Fhb1-S). When Lunxuan 136 was used as the recurrent parent, Fhb1-R plants showed significantly fewer infected spikelets per spike than Fhb1-R plants produced using Lunxuan 13 as the recurrent parent, indicating that the genetic backgrounds of Fhb1 influence the expression of FHB resistance. Fhb1-R plants from the DMS-Zhoumai 16/Ningmai 9//Zhoumai 16/3/Lunxuan 136 population showed the highest FHB resistance among the six populations and a significantly higher level of FHB resistance than the moderately susceptible control Huaimai 20. No significant phenotypic differences between Fhb1-R and Fhb1-S plants were observed for the eight agronomic traits investigated. These results suggest that it is feasible to improve FHB resistance of winter wheat withoutreducing yield potential by introgressing Fhb1 resistance allele into FHB-susceptible cultivars in the YHWZ.
基金This work was funded by the National Natural Science Foundation of China(31272140)the Agricultural Science and Technology Innovation Program(ASTIP)(CAAS-ASTIP).
文摘Pears with red skin are attractive to consumers and provide additional health benefits.Identification of the gene(s)responsible for skin coloration can benefit cultivar selection and breeding.The use of QTL-seq,a bulked segregant analysis method,can be problematic when heterozygous parents are involved.The present study modified the QTL-seq method by introducing a|Δ(SNP-index)|parameter to improve the accuracy of mapping the red skin trait in a group of highly heterozygous Asian pears.The analyses were based on mixed DNA pools composed of 28 red-skinned and 27 green-skinned pear lines derived from a cross between the‘Mantianhong’and‘Hongxiangsu’red-skinned cultivars.The‘Dangshansuli’cultivar genome was used as reference for sequence alignment.An average single-nucleotide polymorphism(SNP)index was calculated using a sliding window approach(200-kb windows,20-kb increments).Nine scaffolds within the candidate QTL interval were in the fifth linkage group from 111.9 to 177.1 cM.There was a significant linkage between the insertions/deletions and simple sequence repeat markers designed from the candidate intervals and the red/green skin(R/G)locus,which was in a 582.5-kb candidate interval that contained 81 predicted protein-coding gene models and was composed of two subintervals at the bottom of the fifth chromosome.The ZFRI 130-16,In2130-12 and In2130-16 markers located near the R/G locus could potentially be used to identify the red skin trait in Asian pear populations.This study provides new insights into the genetics controlling the red skin phenotype in this fruit.
基金supported by the National Key Research and Development Program of China (2017YFD0101000, 2016YFD0101004)the National Natural Science Foundation of China (31771881, 31401468)the CAAS Innovation Team and the National Engineering Laboratory of Crop Molecular Breeding
文摘Knowledge of allelic frequencies at loci associated with kernel weight and effects on kernel weight-related traits is crucial for yield improvement in wheat. Kernel weight-related traits were evaluated in 200 Chinese winter wheat cultivars(lines) grown at the Xinxiang Experimental Station, Chinese Academy of Agricultural Sciences, Xinxiang in Henan Province, for three consecutive years from 2014 to 2016. Alleles associated with kernel weight at nine loci, TaCKX6-D1, TaCwi-A1, TaCWI-4A, TaGS1a, TaGS5-A1, TaGS3-3A, TaGW2-6A, TaSus2-2B, and TaTGW6-A1, were determined for all cultivars(lines). ANOVA showed that genotypes, years and their interactions had significant effects on thousand-kernel weight(TKW), kernel length(KL) and kernel width(KW). The overall mean frequencies of alleles conferring high and low TKW at the nine loci were 65.9% and 33.4%, with the ranges of 37.0%–85.0% and 13.5%–63.0% for single loci. The frequencies of high-TKW alleles were over 50.0% at eight of the loci. Genotypes at each locus with the high-TKW allele had higher TKW than those with the low-TKW allele. The high-TKW allele Hap-H at the TaSus2-2B locus can be preferably used to increase grain yield due to its high TKW(49.32 g). A total of 18 main allelic combinations(ACs) at nine loci were detected. Three ACs(AC1–AC3) had significantly higher TKW than AC6 with high-TKW alleles at all nine loci even though they contained some low-TKW alleles. This indicated that other loci controlling kernel weight were present in the high-TKW cultivars. This work provides important information for parental selection and marker-assisted selection for breeding.
基金funded by the China Agriculture Research System of MOF and MARA(CARS-41)the Agricultural Breed Project of Shandong Province,China(2019LZGC019 and 2020LZGC013)+1 种基金the Shandong Provincial Natural Science Foundation,China(ZR2020MC169)the Agricultural Scientific and Technological Innovation Project of Shandong Academy of Agricultural Sciences,China(CXGC2022C04 and CXGC2022E11).
文摘Many different chicken breeds are found around the world,their features vary among them,and they are valuable resources.Currently,there is a huge lack of knowledge of the genetic determinants responsible for phenotypic and biochemical properties of these breeds of chickens.Understanding the underlying genetic mechanisms that explain across-breed variation can help breeders develop improved chicken breeds.The whole-genomes of 140 chickens from 7 Shandong native breeds and 20 introduced recessive white chickens from China were re-sequenced.Comparative population genomics based on autosomal single nucleotide polymorphisms(SNPs)revealed geographically based clusters among the chickens.Through genome-wide scans for selective sweeps,we identified thyroid stimulating hormone receptor(TSHR,reproductive traits,circadian rhythm),erythrocyte membrane protein band 4.1 like 1(EPB41L1,body size),and alkylglycerol monooxygenase(AGMO,aggressive behavior),as major candidate breed-specific determining genes in chickens.In addition,we used a machine learning classification model to predict chicken breeds based on the SNPs significantly associated with recourse characteristics,and the prediction accuracy was 92%,which can effectively achieve the breed identification of Laiwu Black chickens.We provide the first comprehensive genomic data of the Shandong indigenous chickens.Our analyses revealed phylogeographic patterns among the Shandong indigenous chickens and candidate genes that potentially contribute to breed-specific traits of the chickens.In addition,we developed a machine learning-based prediction model using SNP data to identify chicken breeds.The genetic basis of indigenous chicken breeds revealed in this study is useful to better understand the mechanisms underlying the resource characteristics of chicken.
基金This study was supported by grants from the National Natural Science Foundation of China(Nos.41706174 and 31702326)the Natural Science Foundation of Guangdong Province(No.2019A1515110619)+2 种基金the Department of Education of Guangdong Province(Nos.2018KQNCX111 and 2019KTSCX060)the College Students’Innovation and Entrepreneurship Project of Guangdong Province(No.CX XL2019138)the Program for Scientific Research Startup Funds of Guangdong Ocean University(No.R19026).
文摘Sillago sihama,commonly known as silver sillago,is considered as an economically important fish species in China.It is sensitive to hypoxia stress in the larval stage,and the mechanism has not been understood thoroughly.In this study,we investigated the transcriptome change in heart tissues under hypoxia stress.The fish were divided into four groups,including 1 h of hypoxia(hypoxia1h,dissolved oxygen(DO)=1.5±0.1 mg L^(−1)),4h of hypoxia(hypoxia4h,DO=1.5±0.1 mg L^(−1)),4h of reoxygen(reoxygen4h,DO=8.0±0.2 mg L^(−1))after 4h of hypoxia(DO=1.5 mg L^(−1))and normoxia or control(DO=8.0±0.2 mg L^(−1))groups.The results showed that a total of 3068 genes were identified as differentially expressed genes(DEGs)based on the criteria∣log2(Fold change)∣>1.0 and adjusted P-value<0.05.A total of 7761141 and 1151 DEGs were obtained from hypoxia1h,hypoxia4h and reoxygen4h groups,respectively.The enrichment pathway analysis showed that the DEGs were significantly enriched in ribosome biogenesis in eukaryotes,retinol metabolism,DNA replication and the oxidative phosphorylation(OXPHOS)pathways.Thirteen DEGs from the RNA-seq results were validated by quantitative real-time polymerase chain reaction(qRT-PCR).These candidate genes are considered as important regulatory factors involved in the hypoxia stress response in S.sihama.
基金supported by the Guangdong Provincial Key R&D Program(2021B0707010010)the Key R&D Program of Guangzhou Science and Technology Project(202103000083).
文摘Grain size influences the yield and quality of rice(Oryza sativa L.),and grain length is one of the component traits of grain size.In this study,a near-isogenic line LB3 with long grain size was constructed using japonica rice cultivar 02428,with short grain size,as the recipient parent and indica rice cultivar ZYX,with long grain size,as the donor parent,by multi-generation backcrossing and selfing.BSA-seq was used for preliminary QTL mapping and InDel markers were developed to fine map the locus.The major QTL,tentatively named qGL10,for grain length was located in a 128.45 kb region of chromosome 10.Combined with haplotype analysis of rice varieties,expression pattern analysis of candidate genes suggested LOC_Os10g39130(OsMADS56)as a candidate gene.Sequence alignment of OsMADS56 in 02428 and LB3 revealed that there were 15 SNPs in the promoter region and four in the coding region.Further haplotype analysis suggested that SNP9(G/A)located in the TGTCACA motif might account for the different expression levels of OsMADS56 in 02428 and LB3.These results lay a foundation for the application of qGL10 in molecular breeding of new rice varieties.
基金the National Natural Sciences Foundation of China(32201770)the project of the development for high-quality seed industry of Hubei province(HBZY2023B003)+2 种基金Key Area Research and Development Program of Hubei Province(2021BBA077)the Natural Science Foundation of Hubei Province(22CFB332)the Agricultural Science and Technology Innovation Program of Chinese Academy of Agricultural Sciences(CAAS-ASTIP-2021-OCRI).
文摘Peanut cultivation in China spans various ecological zones, each with unique environmental conditions. Identifying suitable peanut varieties for these regions has been challenging due to significant phenotypic variations observed across environments. This study, based on a comprehensive analysis of 256 peanut varieties, selected nine representative varieties(Huayu23, Yuanza9102, Silihong, Wanhua2, Zhonghua6, Zhonghua16, Zhonghua21,Zhonghua215, Zhonghua24) for cultivation in five distinct ecological zones including Chengdu, Hefei, Nanjing,Shijiazhuang, and Wuhan. The yield and quality related phenotypic traits of these varieties were thoroughly assessed, revealing a complex interplay between genetic and environmental factors. Principal component analysis(PCA) effectively distinguished varieties based on yield and quality traits. Strong correlations were observed between specific traits, such as seed size and quality components. The G × E interaction was evident, as some varieties consistently performed better in certain environments. Varieties with lower coefficient of variation(CV)values exhibited stable trait expression, making them reliable choices for broad cultivation. In contrast, varieties with higher CV values displayed greater sensitivity to environmental fluctuations, potentially due to specific genetic factors. Two high oleic acid varieties, Zhonghua24 and Zhonghua215, demonstrated remarkable stability in oleic acid content across diverse environments, suggesting the presence of genetic mechanisms that buffer against environmental variations. Overall, this study underscores the importance of selecting peanut varieties based on their adaptability and performance in specific ecological zones. These findings provide valuable insights for peanut breeders and farmers, facilitating informed decisions for improved crop production and quality.
基金supported by the National Key Research and Development Program of China(2016YFD0101007,2016YFD0100305,2018YFD0200904)the National Natural Science Foundation of China(31471536,31770250)+1 种基金the Earmarked Fund for China Agriculture Research System(CARS-12)the Agricultural Science and Technology Innovation Program(ASTIP)of Chinese Academy of Agricultural Sciences
文摘Optimizing the profile and quantity of fatty acids in rapeseed(Brassica napus L.) is critical for maximizing the value of edible oil and biodiesel. However, selection of these complex seed quality traits is difficult before haplotypes controlling their contents are identified. To efficiently identify genetic loci influencing these traits and underlying candidate genes and networks, we performed a genome-wide association study(GWAS) of eight seed quality traits(oil and protein content, palmitic, stearic, oleic, linoleic, eicosenoic and erucic acids content). The GWAS population comprised 370 diverse accessions, which were phenotyped in five environments and genotyped using 60K SNP arrays. The results indicated that oil and protein contents generally showed negative correlations, while fatty acid contents showed positive or negative correlations,with palmitic and erucic acid contents directly affecting oil content. Seven SNPs on five chromosomes were associated with both seed oil and protein content, and five genes orthologous to genes in Arabidopsis thaliana were predicted as candidates. From resequencing data, besides known haplotypes in Bna A.FAE1.a and Bna C.FAE1.a, three accessions harboring a new haplotype conferring moderate erucic acid content were identified. Interestingly, in a haplotype block, one haplotype was associated with high palmitic acid content and low oil content, while the others showed the reverse effects. This finding was consistent with a negative correlation between palmitic acid and oil contents, suggesting historical selection for high oil content. The identification by this study of genetic variation and complex correlations of eight seed quality traits may be beneficial for crop selection strategies.
文摘Global warming has become a global challenge having dire consequences on different aspects of the environment due to the melting of glaciers, excess carbon dioxide (CO<sub>2</sub>), and excess warming of water bodies among others. At a faster pace recently, climate change is affecting the marine environment, causing numerous alterations. Here, we address its consequences and the numerous alterations, which are more vital for researchers and global agencies to advocate more on why it’s essential to lessen the impact of climate change. Our review showed that the impacts of climate change are articulated at several stages of the marine ecosystem where it affects the inhabitants and their habitats. In response to climate change (ocean warming) marine species shift their latitudinal range to find suitable conditions leading to the redistribution of species. In addition, we found that growth reduction, sub-optimal behaviors, and reduced immune-competence of marine organisms, are as a result of thermal stress due to climate change. Also, the periodic changes in temperature above or below the optimum have a meditative reproductive effect on marine species, including fish. Finally, we discovered that due to higher water temperatures, several diseases showcase greater virulence in the sense that the marine species become less resistant to these diseases due to stress, increased virulence stimuli, or increased transmission.
