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Genome-wide patterns of large-size presence/absence variants in sorghum

文献类型：期刊论文

作者Zhang, Li-Min; Luo, Hong; Liu, Zhi-Quan; Zhao, Yi; Luo, Jing-Chu; Hao, Dong-Yun; Jing, Hai-Chun
刊名JOURNAL OF INTEGRATIVE PLANT BIOLOGY
出版日期2014
卷号56期号:1页码:24-37
关键词Breeding genetic diversity genomics presence absence variants Sorghum bicolour
ISSN号1672-9072
DOI10.1111/jipb.12121
文献子类Article
英文摘要The presence/absence variants (PAVs) are a major source of genome structural variation and have profound effects on phenotypic and genomic variation in animals and humans. However, little is understood about PAVs in plant genomes. Our previous resequencing effort on three sorghum (Sorghum bicolour L.) genomes, each 12x coverage, uncovered 5 364 PAVs. Here, we report a detailed characterization of 51 large-size (>30kb) PAVs. These PAVs spanned a total size of 2.92 Mb of the sorghum genome containing 202 known and predicted genes, including 38 genes annotated to encode cell death and stress response genes. The PAVs varied considerably for repeat sequences and mobile elements with DNA transposons as the major components. The frequency and distribution of these PAVs differed substantially across 96 sorghum inbred lines, and the low- and high frequency PAVs differed in their gene categories. This report shed new light on the occurrence and diversity of PAVs in sorghum genomes. Our research exemplifies a new perspective to explore genome structural variation for genetic improvement in plant breeding.
学科主题Biochemistry & Molecular Biology ; Plant Sciences
出版地HOBOKEN
电子版国际标准刊号1744-7909
WOS关键词COPY-NUMBER VARIATION ; SINGLE-FEATURE POLYMORPHISM ; LARGE-SCALE VARIATION ; STRUCTURAL VARIATION ; DELETION POLYMORPHISM ; GENETIC-VARIATION ; MAIZE ; ARABIDOPSIS ; REVEALS ; RESISTANCE
WOS研究方向Biochemistry & Molecular Biology ; Plant Sciences
语种英语
WOS记录号WOS:000330853300005
出版者WILEY
资助机构National Natural Science Foundation of China [31271797] ; National Science & Technology Support Program [2013BAD22B01] ; Knowledge Innovation Program (KIP) of the Chinese Academy of Sciences [KSCX2-YW-G-067]
源URL[http://ir.ibcas.ac.cn/handle/2S10CLM1/27139]  
专题中科院北方资源植物重点实验室
作者单位1.[Zhang, Li-Min
2.Luo, Hong
3.Liu, Zhi-Quan
4.Chinese Acad Sci, Inst Bot, Key Lab Plant Resources, Beijing 100093, Peoples R China
5.Jilin Univ, Minist Educ, Key Lab Mol Enzymol & Engn, Changchun 130012, Peoples R China
6.[Zhao, Yi
7.Peking Univ, Coll Life Sci, Beijing 100871, Peoples R China
8.Jilin Acad Agr Sci, Inst Agr Biotechnol, Changchun 130124, Peoples R China
推荐引用方式
GB/T 7714		 Zhang, Li-Min,Luo, Hong,Liu, Zhi-Quan,et al. Genome-wide patterns of large-size presence/absence variants in sorghum[J]. JOURNAL OF INTEGRATIVE PLANT BIOLOGY,2014,56(1):24-37.
APA Zhang, Li-Min.,Luo, Hong.,Liu, Zhi-Quan.,Zhao, Yi.,Luo, Jing-Chu.,...&Jing, Hai-Chun.(2014).Genome-wide patterns of large-size presence/absence variants in sorghum.JOURNAL OF INTEGRATIVE PLANT BIOLOGY,56(1),24-37.
MLA Zhang, Li-Min,et al."Genome-wide patterns of large-size presence/absence variants in sorghum".JOURNAL OF INTEGRATIVE PLANT BIOLOGY 56.1(2014):24-37.

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来源：植物研究所

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