Juglans sigillata is an economically valuable nut crop renowned for its nutritional richness,including essential nutrients,antioxidants,and healthy fats,which boost human cardial,brain and gut health.Despite its impor...Juglans sigillata is an economically valuable nut crop renowned for its nutritional richness,including essential nutrients,antioxidants,and healthy fats,which boost human cardial,brain and gut health.Despite its importance,the lack of a complete genome assembly has been a stumbling block in its biological breeding process.Therefore,we generated deep coverage ultralong Oxford Nanopore Technology(ONT)and PacBio HiFi reads to construct a telomere-to-telomere(T2T)genome assembly.The final assembly spans 537.27 Mb with no gaps,demonstrating a remarkable completeness of 98.1%.We utilized a combination of transcriptome data and homologous proteins to annotate the genome,identifying 36018 protein-coding genes.Furthermore,we profiled global cytosine DNA methylations using ONT sequencing data.Global methylome analysis revealed high methylation levels in transposable element(TE)-rich chromosomal regions juxtaposed with comparatively lower methylation in gene-rich areas.By integrating a detailed multi-omics data analysis,we obtained valuable insights into the mechanism underlying endopleura coloration.This investigation led to the identification of eight candidate genes(e.g.ANR)involved in anthocyanin biosynthesis pathways,which are crucial for the development of color in plants.The comprehensive genome assembly and the understanding of the genetic basis of important traits like endopleura coloration will open avenues for more efficient breeding programs and improved crop quality.展开更多
We used fast chlorophyll fluorescence transients(OJIP) to study provenance-related differences in photosynthetic performance and the magnitude of day-to-day chlorophyll fluorescence(ChlF) variation in northern(67°...We used fast chlorophyll fluorescence transients(OJIP) to study provenance-related differences in photosynthetic performance and the magnitude of day-to-day chlorophyll fluorescence(ChlF) variation in northern(67°N)and southern(62°N) silver birches in a common garden at62°N.ChlF transients were measured five times during two weeks in the middle of summer to avoid seasonal variation.Differences in growth and leaf morphological traits between the provenances were also examined.The northern trees had higher chlorophyll content,larger leaf areas,and higher leaf fresh and dry mass than the southern trees,but the leaf mass per area did not differ between the provenances.The southern trees were taller and showed higher annual shoot growth than the northern trees.For all the ChlF parameters,day-to-day variation was significant and followed the same pattern for both provenances with no significant provenance ×day interaction,suggesting a similar response to environmental variation.The northern provenance had higher values in parameters related to the reduction of end electron acceptors at the Photosystem I(PSI) acceptor side as probed by ChlF.This and higher values for performance indices PI_(abs) and PI_(tot) in northern than in southern trees suggest higher photosynthetic performance of northern trees in line with the latitudinal compensation strategy.Provenance differences in these parameters increased towards the end of the measurement period,suggesting preparation for earlier growth cessation in northern trees triggered by the shortening day length.The study shows that provenance differences in ChlF can be relatively stable regardless of environmental variation but might be influenced by physiological alterations in preparation for future changes in environmental conditions.展开更多
基金supported by the Yunnan Seed Laboratory,China(202205AR070001-15)the National Natural Science Foundation of China,China(Grant No.32160697)。
文摘Juglans sigillata is an economically valuable nut crop renowned for its nutritional richness,including essential nutrients,antioxidants,and healthy fats,which boost human cardial,brain and gut health.Despite its importance,the lack of a complete genome assembly has been a stumbling block in its biological breeding process.Therefore,we generated deep coverage ultralong Oxford Nanopore Technology(ONT)and PacBio HiFi reads to construct a telomere-to-telomere(T2T)genome assembly.The final assembly spans 537.27 Mb with no gaps,demonstrating a remarkable completeness of 98.1%.We utilized a combination of transcriptome data and homologous proteins to annotate the genome,identifying 36018 protein-coding genes.Furthermore,we profiled global cytosine DNA methylations using ONT sequencing data.Global methylome analysis revealed high methylation levels in transposable element(TE)-rich chromosomal regions juxtaposed with comparatively lower methylation in gene-rich areas.By integrating a detailed multi-omics data analysis,we obtained valuable insights into the mechanism underlying endopleura coloration.This investigation led to the identification of eight candidate genes(e.g.ANR)involved in anthocyanin biosynthesis pathways,which are crucial for the development of color in plants.The comprehensive genome assembly and the understanding of the genetic basis of important traits like endopleura coloration will open avenues for more efficient breeding programs and improved crop quality.
基金supported by the University of Eastern FinlandCzech University of Life Sciences doctoral research funding to O.A+5 种基金North Karelia Regional Fund to O.A (grant number 55232028)University of Eastern Finland(strategic fundingproject 931060)the Academy of Finland(C-NEUT,project number 347862)part of the Academy of Finland Flagship on Photonics Research and Innovation (PREIN) decision (320166)the Finnish National Plant Phenotyping Infrastructure (NaPPI/Biocenter Finland)
文摘We used fast chlorophyll fluorescence transients(OJIP) to study provenance-related differences in photosynthetic performance and the magnitude of day-to-day chlorophyll fluorescence(ChlF) variation in northern(67°N)and southern(62°N) silver birches in a common garden at62°N.ChlF transients were measured five times during two weeks in the middle of summer to avoid seasonal variation.Differences in growth and leaf morphological traits between the provenances were also examined.The northern trees had higher chlorophyll content,larger leaf areas,and higher leaf fresh and dry mass than the southern trees,but the leaf mass per area did not differ between the provenances.The southern trees were taller and showed higher annual shoot growth than the northern trees.For all the ChlF parameters,day-to-day variation was significant and followed the same pattern for both provenances with no significant provenance ×day interaction,suggesting a similar response to environmental variation.The northern provenance had higher values in parameters related to the reduction of end electron acceptors at the Photosystem I(PSI) acceptor side as probed by ChlF.This and higher values for performance indices PI_(abs) and PI_(tot) in northern than in southern trees suggest higher photosynthetic performance of northern trees in line with the latitudinal compensation strategy.Provenance differences in these parameters increased towards the end of the measurement period,suggesting preparation for earlier growth cessation in northern trees triggered by the shortening day length.The study shows that provenance differences in ChlF can be relatively stable regardless of environmental variation but might be influenced by physiological alterations in preparation for future changes in environmental conditions.
