Peanut(Arachis hypogaea),which is widely cultivated across the world,provides high-quality vegetable oil,protein,dietary fiber,minerals,and vitamins for humans.However,in field conditions,the peanut is easily affected...Peanut(Arachis hypogaea),which is widely cultivated across the world,provides high-quality vegetable oil,protein,dietary fiber,minerals,and vitamins for humans.However,in field conditions,the peanut is easily affected by various biotic and abiotic stresses.Diplodia gossypina is the dominant pathogen causing severe collar rot on peanuts.To dissect the pathogenic mechanism of D.gossypina,genome sequencing analysis was performed by using the D.gossypina strain A20_4.The sequencing data showed that the genome assembly size of D.gossypina A20_4 is 43.03 Mb with a GC content of 54.91%.The de novo assembly identified a total of 10,745 genes,containing 41,526 coding sequences and 2.20%of repeat sequences,of which 6,461 genes(60.13%)were annotated using BlastP from GO annotation,3,245 genes(30.20%)and 3,093 genes(28.79%)were annotated from KOG and KEGG annotations,respectively.Meanwhile,the secreted proteins and effectors in 10,745 protein sequences encoded by the whole genome of D.gossypina A20_4 were analyzed,and the results showed that there are 790 secreted protein genes including 220 carbohydrate-active enzymes and 224 potential effector proteins.The functions of 222 potential effector proteins can be annotated by PHI-base.According to the annotation results,12 key pathogenic factors were identified in D.gossypina A20_4.Moreover,a serine/threonine protein kinase SNF1 gene required for autophagy process was identified and analyzed.Deciphering the whole genome of D.gossypina A20_4 provides us with novel insights into understanding evolution,pathogenic molecular mechanism,host-pathogen interaction,and many other complexities of the pathogen.展开更多
Deep-sowing is an important method for avoiding drought stress in crop species,including maize.Identifying candidate genes is the groundwork for investigating the molecular mechanism underlying maize deep-sowing toler...Deep-sowing is an important method for avoiding drought stress in crop species,including maize.Identifying candidate genes is the groundwork for investigating the molecular mechanism underlying maize deep-sowing tolerance.This study evaluated four traits(mesocotyl length at 10 and 20 cm planting depths and seedling emergence rate on days 6 and 12)related to deep-sowing tolerance using a large maize population containing 386 inbred lines genotyped with 0.5 million high-quality single nucleotide polymorphisms(SNPs).The genomewide association study detected that 273 SNPs were in linkage disequilibrium(LD)with the genetic basis of maize deep-sowing tolerance.The RNA-sequencing analysis identified 1944 and 2098 differentially expressed genes(DEGs)in two comparisons,which shared 281 DEGs.By comparing the genomic locations of the 273 SNPs with those of the 281 DEGs,we identified seven candidate genes,of which GRMZM2G119769 encoded a sucrose non-fermenting 1 kinase interactor-like protein.GRMZM2G119769 was selected as the candidate gene because its homologs in other plants were related to organ length,auxin,or light response.Candidate gene association mapping revealed that natural variations in GRMZM2G119769 were related to phenotypic variations in maize mesocotyl length.Gene expression of GRMZM2G119769 was higher in deep-sowing tolerant inbred lines.These results suggest that GRMZM2G119769 is the most likely candidate gene.This study provides information on the deep-sowing tolerance of maize germplasms and identifies candidate genes,which would be useful for further research on maize deep-sowing tolerance.展开更多
基金Supported by the National Natural Science Foundation of China(30770043)by the National Programs for High Technology Research and Development of China(2007CB707801)~~
文摘【目的】Snf1/AMPK在真核生物中是重要的且高度保守的一类蛋白激酶。在新型隐球酵母中,SNF1基因在调节致病因子的生物合成和细胞毒力方面具有重要作用。本文进一步报道了该基因在维持细胞壁完整方面的新功能,这一功能在其他微生物中未见报道。【方法】利用荧光增白剂染料(Calcofluor white dye)染色,荧光显微观察细胞分离、胞壁完整性;利用恒定流速和压力水流冲击菌落,测定细胞黏附琼脂表面能力;在含有十二烷基硫酸钠(Sodium dodecyl sulfate,SDS),刚果红(Congo red)染料和增白剂(FluorescentBrightener 28)的培养基上观察突变株的生长情况,以验证细胞壁完整性。【结果】SNF1基因突变菌株对细胞壁抑制剂SDS等敏感,表明细胞壁完整性的损坏;在葡萄糖固体培养基上表现为细胞与琼脂间的黏附力丧失;在热击压力下,该菌株不能正常生长,而这种生长缺陷能够被渗透平衡抑制。【结论】新型隐球酵母SNF1基因对于维持细胞壁完整性是非常重要的,并且影响细胞与琼脂间黏附作用以及细胞对抗热的能力。
基金The Major Science and Technology Project of Henan Province(Grant No.201300111000)The Basic scientific Research Project of Henan Academy of Agricultural Sciences(Grant No.2022ZC37,2023ZC46)。
文摘Peanut(Arachis hypogaea),which is widely cultivated across the world,provides high-quality vegetable oil,protein,dietary fiber,minerals,and vitamins for humans.However,in field conditions,the peanut is easily affected by various biotic and abiotic stresses.Diplodia gossypina is the dominant pathogen causing severe collar rot on peanuts.To dissect the pathogenic mechanism of D.gossypina,genome sequencing analysis was performed by using the D.gossypina strain A20_4.The sequencing data showed that the genome assembly size of D.gossypina A20_4 is 43.03 Mb with a GC content of 54.91%.The de novo assembly identified a total of 10,745 genes,containing 41,526 coding sequences and 2.20%of repeat sequences,of which 6,461 genes(60.13%)were annotated using BlastP from GO annotation,3,245 genes(30.20%)and 3,093 genes(28.79%)were annotated from KOG and KEGG annotations,respectively.Meanwhile,the secreted proteins and effectors in 10,745 protein sequences encoded by the whole genome of D.gossypina A20_4 were analyzed,and the results showed that there are 790 secreted protein genes including 220 carbohydrate-active enzymes and 224 potential effector proteins.The functions of 222 potential effector proteins can be annotated by PHI-base.According to the annotation results,12 key pathogenic factors were identified in D.gossypina A20_4.Moreover,a serine/threonine protein kinase SNF1 gene required for autophagy process was identified and analyzed.Deciphering the whole genome of D.gossypina A20_4 provides us with novel insights into understanding evolution,pathogenic molecular mechanism,host-pathogen interaction,and many other complexities of the pathogen.
基金supported by the National Key R&D Program of China(2018YFD0100903)the China Agriculture Research System of MOF and MARA(CARS-02-13)the Natural Science Fund of Liaoning Province,China(20170540806)。
文摘Deep-sowing is an important method for avoiding drought stress in crop species,including maize.Identifying candidate genes is the groundwork for investigating the molecular mechanism underlying maize deep-sowing tolerance.This study evaluated four traits(mesocotyl length at 10 and 20 cm planting depths and seedling emergence rate on days 6 and 12)related to deep-sowing tolerance using a large maize population containing 386 inbred lines genotyped with 0.5 million high-quality single nucleotide polymorphisms(SNPs).The genomewide association study detected that 273 SNPs were in linkage disequilibrium(LD)with the genetic basis of maize deep-sowing tolerance.The RNA-sequencing analysis identified 1944 and 2098 differentially expressed genes(DEGs)in two comparisons,which shared 281 DEGs.By comparing the genomic locations of the 273 SNPs with those of the 281 DEGs,we identified seven candidate genes,of which GRMZM2G119769 encoded a sucrose non-fermenting 1 kinase interactor-like protein.GRMZM2G119769 was selected as the candidate gene because its homologs in other plants were related to organ length,auxin,or light response.Candidate gene association mapping revealed that natural variations in GRMZM2G119769 were related to phenotypic variations in maize mesocotyl length.Gene expression of GRMZM2G119769 was higher in deep-sowing tolerant inbred lines.These results suggest that GRMZM2G119769 is the most likely candidate gene.This study provides information on the deep-sowing tolerance of maize germplasms and identifies candidate genes,which would be useful for further research on maize deep-sowing tolerance.
