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Genomics and evolution

This section considers studies in the evolution of plants as well as comparative genomics in relation to plant biology.

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  1. Mung bean (Vigna radiata) is a warm-season legume crop and belongs to the papilionoid subfamily of the Fabaceae family. China is the leading producer of mung bean in the world. Mung bean has significant economic ...

    Authors: Lili Yin, Meiling Zhang, Ruigang Wu, Xiaoliang Chen, Fei Liu and Baolong Xing

    Citation: BMC Plant Biology 2021 21:408

    Content type: Research article

    Published on:

  3. To understand the mechanism of glucosinolates (GSs) accumulation in the specific organs, combined analysis of physiological change and transcriptome sequencing were applied in the current study. Taking Chinese...

    Authors: Yijiao Zhao, Zeyuan Chen, Jiaxuan Chen, Bingxing Chen, Weiling Tang, Xiaodong Chen, Zhongxiong Lai and Rongfang Guo

    Citation: BMC Plant Biology 2021 21:394

    Content type: Research article

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  4. The abiotic stress such as soil salinization and heavy metal toxicity has posed a major threat to sustainable crop production worldwide. Previous studies revealed that halophytes were supposed to tolerate othe...

    Authors: Qinqin Wang, Xuke Lu, Xiugui Chen, Lanjie Zhao, Mingge Han, Shuai Wang, Yuexin Zhang, Yapeng Fan and Wuwei Ye

    Citation: BMC Plant Biology 2021 21:386

    Content type: Research article

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  5. Research in the past decade has demonstrated that a single reference genome is not representative of a species’ diversity. MaizeGDB introduces a pan-genomic approach to hosting genomic data, leveraging the lar...

    Authors: Margaret R. Woodhouse, Ethalinda K. Cannon, John L. Portwood II, Lisa C. Harper, Jack M. Gardiner, Mary L. Schaeffer and Carson M. Andorf

    Citation: BMC Plant Biology 2021 21:385

    Content type: Database

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  6. Glycolytic pathway is common in all plant organs, especially in oxygen-deficient tissues. Phosphofructokinase (PFK) is a rate-limiting enzyme in the glycolytic pathway and catalyses the phosphorylation of fruc...

    Authors: Haiyan Wang, Pingjuan Zhao, Xu Shen, Zhiqiang Xia, Xincheng Zhou, Xin Chen, Cheng Lu and WenquanWang

    Citation: BMC Plant Biology 2021 21:376

    Content type: Research article

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  8. Plant phylogeographic studies of species in subtropical China have mainly focused on rare and endangered species, whereas few studies have been conducted on taxa with relatively wide distribution, especially p...

    Authors: Zhi Wang, Caihong Zhong, Dawei Li, Chunlin Yan, Xiaohong Yao and Zuozhou Li

    Citation: BMC Plant Biology 2021 21:325

    Content type: Research article

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  9. Cigar wrapper leaves are the most important raw material of cigars. Studying the genomic information of cigar tobacco is conducive to improving cigar quality from the perspective of genetic breeding. However, ...

    Authors: Hui Zhang, Jingjing Jin, Guoyun Xu, Zefeng Li, Niu Zhai, Qingxia Zheng, Hongkun Lv, Pingping Liu, Lifeng Jin, Qiansi Chen, Peijian Cao and Huina Zhou

    Citation: BMC Plant Biology 2021 21:299

    Content type: Research article

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  10. Drought is a common phenomenon worldwide. It is also one of the main abiotic factors that affect the growth and quality of strawberry. The dehydration-responsive element binding protein (DREB) members that bel...

    Authors: Chao Dong, Yue Xi, Xinlu Chen and Zong-Ming Cheng

    Citation: BMC Plant Biology 2021 21:295

    Content type: Research article

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  11. As an important cash crop, the yield of peanut is influenced by soil acidification and pathogen infection. Receptor-like protein kinases play important roles in plant growth, development and stress responses. ...

    Authors: Xin Wang, Ming-Hua Wu, Dong Xiao, Ruo-Lan Huang, Jie Zhan, Ai-Qin Wang and Long-Fei He

    Citation: BMC Plant Biology 2021 21:281

    Content type: Research article

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  12. Setaria italica is the second-most widely planted species of millets in the world and an important model grain crop for the research of C4 photosynthesis and abiotic stress tolerance. Through three genomes assemb...

    Authors: Jie Wang, Shiming Li, Lei Lan, Mushan Xie, Shu Cheng, Xiaolong Gan, Gang Huang, Guohua Du, Kang Yu, Xuemei Ni, Baolong Liu and Guoxiong Peng

    Citation: BMC Plant Biology 2021 21:271

    Content type: Research article

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  14. The basic helix–loop–helix (bHLH) transcription factors (TFs) serve crucial roles in regulating plant growth and development and typically participate in biological processes by interacting with other TFs. Cap...

    Authors: Renjian Liu, Jiali Song, Shaoqun Liu, Changming Chen, Shuanglin Zhang, Juntao Wang, Yanhui Xiao, Bihao Cao, Jianjun Lei and Zhangsheng Zhu

    Citation: BMC Plant Biology 2021 21:262

    Content type: Research article

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  15. The plant U-box (PUB) proteins are a family of ubiquitin ligases (E3) enzymes that involved in diverse biological processes, as well as in responses to plant stress response. However, the characteristics and f...

    Authors: Chunmeng Wang, Bobo Song, Yuqin Dai, Shaoling Zhang and Xiaosan Huang

    Citation: BMC Plant Biology 2021 21:235

    Content type: Research article

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  17. Most orchid species have been shown to be severely pollination limited, and the factors affecting reproductive success have been widely studied. However, the factors determining the reproductive success vary f...

    Authors: Wenliu Zhang and Jiangyun Gao

    Citation: BMC Plant Biology 2021 21:187

    Content type: Research article

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  18. Allium sativum (garlic) is an economically important food source and medicinal plant rich in sulfides and other protective substances such as alliin, the precursor of allicin biosynthesis. Cysteine, serine and su...

    Authors: Xuqin Yang, Yiren Su, Jiaying Wu, Wen Wan, Huijian Chen, Xiaoying Cao, Junjuan Wang, Zhong Zhang, Youzhi Wang, Deliang Ma, G. J. Loake and Jihong Jiang

    Citation: BMC Plant Biology 2021 21:174

    Content type: Research article

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  20. Identifying the loci and dissecting the genetic architecture underlying wheat yield- and quality-related traits are essential for wheat breeding. A genome-wide association study was conducted using a high-dens...

    Authors: Le Gao, Chengsheng Meng, Tengfei Yi, Ke Xu, Huiwen Cao, Shuhua Zhang, Xueju Yang and Yong Zhao

    Citation: BMC Plant Biology 2021 21:144

    Content type: Research article

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  21. Cannabis, an important industrial crop, has a high sensitivity to photoperiods. The flowering time of cannabis is one of its important agronomic traits, and has a significant effect on its yield and quality. The

    Authors: Gen Pan, Zheng Li, Ming Yin, Siqi Huang, Jie Tao, Anguo Chen, Jianjun Li, Huijuan Tang, Li Chang, Yong Deng, Defang Li and Lining Zhao

    Citation: BMC Plant Biology 2021 21:142

    Content type: Research article

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  22. Genomic imprinting results in the expression of parent-of-origin-specific alleles in the offspring. Brassica napus is an oil crop with research values in polyploidization. Identification of imprinted genes in B. ...

    Authors: Hao Rong, Wenjing Yang, Haotian Zhu, Bo Jiang, Jinjin Jiang and Youping Wang

    Citation: BMC Plant Biology 2021 21:140

    Content type: Research article

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  23. It has been recognized that a certain amount of habitat disturbance is a facilitating factor for the occurrence of natural hybridization, yet to date we are unaware of any studies exploring hybridization and r...

    Authors: Rongli Liao, Weibang Sun and Yongpeng Ma

    Citation: BMC Plant Biology 2021 21:133

    Content type: Research article

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  25. Mango, Mangifera indica L., an important tropical fruit crop, is grown for its sweet and aromatic fruits. Past improvement of this species has predominantly relied on chance seedlings derived from over 1000 culti...

    Authors: Ian S. E. Bally, Aureliano Bombarely, Alan H. Chambers, Yuval Cohen, Natalie L. Dillon, David J. Innes, María A. Islas-Osuna, David N. Kuhn, Lukas A. Mueller, Ron Ophir, Aditi Rambani, Amir Sherman and Haidong Yan

    Citation: BMC Plant Biology 2021 21:108

    Content type: Research article

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  26. Chromosomal variants play important roles in crop breeding and genetic research. The development of single-stranded oligonucleotide (oligo) probes simplifies the process of fluorescence in situ hybridization (...

    Authors: Liuyang Fu, Qian Wang, Lina Li, Tao Lang, Junjia Guo, Siyu Wang, Ziqi Sun, Suoyi Han, Bingyan Huang, Wenzhao Dong, Xinyou Zhang and Pei Du

    Citation: BMC Plant Biology 2021 21:107

    Content type: Research article

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  27. Taxol is an efficient anticancer drug accumulated in Taxus species. Pseudotaxus chienii is an important member of Taxaceae, however, the level of six taxoids in P. chienii is largely unknown.

    Authors: Chunna Yu, Chengchao Zhang, Xinyun Xu, Jiefang Huang, Yueyue Chen, Xiujun Luo, Huizhong Wang and Chenjia Shen

    Citation: BMC Plant Biology 2021 21:104

    Content type: Research article

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  28. The overall genetic distribution and divergence of cloned genes among bread wheat varieties that have occurred during the breeding process over the past few decades in Ningxia Province, China, are poorly under...

    Authors: Weijun Zhang, Junjie Zhao, Jinshang He, Ling Kang, Xiaoliang Wang, Fuguo Zhang, Chenyang Hao, Xiongfeng Ma and Dongsheng Chen

    Citation: BMC Plant Biology 2021 21:103

    Content type: Research article

    Published on:

  29. Male sterility (MS) has important applications in hybrid seed production, and the abortion of anthers has been observed in many plant species. While most studies have focused on the genetic factors affecting m...

    Authors: Lijun Zhang, Mingchuan Ma, Lin Cui and Longlong Liu

    Citation: BMC Plant Biology 2021 21:101

    Content type: Research article

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  30. Acyl-CoA-binding proteins (ACBPs) possess a conserved acyl-CoA-binding (ACB) domain that facilitates binding to acyl-CoA esters and trafficking in eukaryotic cells. Although the various functions of ACBP have ...

    Authors: Jiantang Zhu, Weijun Li, Yuanyuan Zhou, Laming Pei, Jiajia Liu, Xinyao Xia, Ronghui Che and Hui Li

    Citation: BMC Plant Biology 2021 21:94

    Content type: Research article

    Published on:

  31. Long noncoding RNAs (lncRNAs) play important roles in essential biological processes. However, our understanding of lncRNAs as competing endogenous RNAs (ceRNAs) and their responses to nitrogen stress is still...

    Authors: Peng Ma, Xiao Zhang, Bowen Luo, Zhen Chen, Xuan He, Haiying Zhang, Binyang Li, Dan Liu, Ling Wu, Shiqiang Gao, Duojiang Gao, Suzhi Zhang and Shibin Gao

    Citation: BMC Plant Biology 2021 21:93

    Content type: Research article

    Published on:

  32. Dirigent (DIR) proteins mediate regioselectivity and stereoselectivity during lignan biosynthesis and are also involved in lignin, gossypol and pterocarpan biosynthesis. This gene family plays a vital role in ...

    Authors: Zhengwen Liu, Xingfen Wang, Zhengwen Sun, Yan Zhang, Chengsheng Meng, Bin Chen, Guoning Wang, Huifeng Ke, Jinhua Wu, Yuanyuan Yan, Liqiang Wu, Zhikun Li, Jun Yang, Guiyin Zhang and Zhiying Ma

    Citation: BMC Plant Biology 2021 21:89

    Content type: Research article

    Published on:

  33. The nitrogen-containing polysaccharide chitin is the second most abundant biopolymer on earth and is found in the cell walls of diatoms, where it serves as a scaffold for biosilica deposition. Diatom chitin is...

    Authors: Haomiao Cheng, Zhanru Shao, Chang Lu and Delin Duan

    Citation: BMC Plant Biology 2021 21:87

    Content type: Research article

    Published on:

  34. Calcium (Ca2+) plays an important role in plant growth and development, and the maintenance of calcium homeostasis is necessary for the survival of all plant species. Ca2+/H+ exchangers (CAXs) are a subgroup of t...

    Authors: Ke Mao, Jie Yang, Min Wang, Huayu Liu, Xin Guo, Shuang Zhao, Qinglong Dong and Fengwang Ma

    Citation: BMC Plant Biology 2021 21:81

    Content type: Research article

    Published on:

  35. The subfamily Bambusoideae belongs to the grass family Poaceae and has significant roles in culture, economy, and ecology. However, the phylogenetic relationships based on large-scale chloroplast genomes (CpGe...

    Authors: Jiongliang Wang, Weixue Mu, Ting Yang, Yue Song, Yin Guang Hou, Yu Wang, Zhimin Gao, Xin Liu, Huan Liu and Hansheng Zhao

    Citation: BMC Plant Biology 2021 21:76

    Content type: Research article

    Published on:

  36. Physical seed dormancy is an important trait in legume domestication. Although seed dormancy is beneficial in wild ecosystems, it is generally considered to be an undesirable trait in crops due to reduction in...

    Authors: Ali Soltani, Katelynn A. Walter, Andrew T. Wiersma, James P. Santiago, Michelle Quiqley, Daniel Chitwood, Timothy G. Porch, Phillip Miklas, Phillip E. McClean, Juan M. Osorno and David B. Lowry

    Citation: BMC Plant Biology 2021 21:58

    Content type: Research article

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  37. The nucleotide-binding site–leucine-rich repeat (NBS-LRR) genes are important for plant development and disease resistance. Although genome-wide studies of NBS-encoding genes have been performed in several spe...

    Authors: Yinbo Ma, Sushil Satish Chhapekar, Lu Lu, Sangheon Oh, Sonam Singh, Chang Soo Kim, Seungho Kim, Gyung Ja Choi, Yong Pyo Lim and Su Ryun Choi

    Citation: BMC Plant Biology 2021 21:47

    Content type: Research article

    Published on:

  39. Comparative chloroplast genomics could shed light on the major evolutionary events that established plastomic diversity among closely related species. The Polypodiaceae family is one of the most species-rich a...

    Authors: Shanshan Liu, Zhen Wang, Yingjuan Su and Ting Wang

    Citation: BMC Plant Biology 2021 21:31

    Content type: Research article

    Published on:

  40. Angelica L. (family Apiaceae) is an economically important genus comprising ca. One hundred ten species. Angelica species are found on all continents of the Northern Hemisphere, and East Asia hosts the highest nu...

    Authors: Mengli Wang, Xin Wang, Jiahui Sun, Yiheng Wang, Yang Ge, Wenpan Dong, Qingjun Yuan and Luqi Huang

    Citation: BMC Plant Biology 2021 21:26

    Content type: Research article

    Published on:

  41. Pilea is a genus of perennial herbs from the family Urticaceae, and some species are used as courtyard ornamentals or for medicinal purposes. At present, there is no information about the plastid genome of Pilea,...

    Authors: Jingling Li, Jianmin Tang, Siyuan Zeng, Fang Han, Jing Yuan and Jie Yu

    Citation: BMC Plant Biology 2021 21:25

    Content type: Research article

    Published on:

  42. DNA methylation is a conserved and important epigenetic modification involved in the regulation of numerous biological processes, including plant development, secondary metabolism, and response to stresses. Ho...

    Authors: Zhenming Yu, Guihua Zhang, Jaime A. Teixeira da Silva, Mingzhi Li, Conghui Zhao, Chunmei He, Can Si, Mingze Zhang and Jun Duan

    Citation: BMC Plant Biology 2021 21:21

    Content type: Research article

    Published on:

  43. Crassulacean acid metabolism (CAM) photosynthesis is an important carbon fixation pathway especially in arid environments because it leads to higher water-use efficiency compared to C3 and C4 plants. However, ...

    Authors: Yan Shi, Xingtan Zhang, Xiaojun Chang, Maokai Yan, Heming Zhao, Yuan Qin and Haifeng Wang

    Citation: BMC Plant Biology 2021 21:19

    Content type: Research article

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  44. Carex L. is one of the largest genera in the Cyperaceae family and an important vascular plant in the ecosystem. However, the genetic background of Carex is complex and the classification is not clear. In order t...

    Authors: Lingyun Liu, Xifeng Fan, Penghui Tan, Juying Wu, Hui Zhang, Chao Han, Chao Chen, Lulu Xun, Weier Guo, Zhihui Chang and Ke Teng

    Citation: BMC Plant Biology 2021 21:17

    Content type: Research article

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  45. Alfalfa (Medicago sativa L.) is a perennial legume extensively planted throughout the world as a high nutritive value livestock forage. Flowering time is an important agronomic trait that contributes to the produ...

    Authors: Dongmei Ma, Bei Liu, Lingqiao Ge, Yinyin Weng, Xiaohui Cao, Fang Liu, Peisheng Mao and Xiqing Ma

    Citation: BMC Plant Biology 2021 21:8

    Content type: Research article

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  46. Caffeic acid O-methyltransferases (COMTs) play an important role in the diversification of natural products, especially in the phenylalanine metabolic pathway of plant. The content of COMT genes in blueberry and ...

    Authors: Yushan Liu, Yizhou Wang, Jiabo Pei, Yadong Li and Haiyue Sun

    Citation: BMC Plant Biology 2021 21:5

    Content type: Research article

    Published on:

  47. Auxin is critical to plant growth and development, as well as stress responses. Small auxin-up RNA (SAUR) is the largest family of early auxin responsive genes in higher plants. However, the function of few SAUR ...

    Authors: Hao Zhang, Zhenjia Yu, Xiaodie Yao, Jingli Chen, Xing Chen, Huiwen Zhou, Yuxia Lou, Feng Ming and Yue Jin

    Citation: BMC Plant Biology 2021 21:4

    Content type: Research article

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  48. Siberian wildrye (Elymus sibiricus L.) attracts considerable interest for grassland establishment and pasture recovery in the Qinghai-Tibet Plateau (QTP) due to its excellence in strong stress tolerance, high nut...

    Authors: Yi Xiong, Xiong Lei, Shiqie Bai, Yanli Xiong, Wenhui Liu, Wendan Wu, Qingqing Yu, Zhixiao Dong, Jian Yang and Xiao Ma

    Citation: BMC Plant Biology 2021 21:3

    Content type: Research article

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  49. Previous studies have shown that ABFs (abscisic acid-responsive transcription factors) are important ABA-signaling components that participate in abiotic stress response. However, little is known about the fun...

    Authors: Fangfang Li, Fangming Mei, Yifang Zhang, Shumin Li, Zhensheng Kang and Hude Mao

    Citation: BMC Plant Biology 2020 20:558

    Content type: Research article

    Published on:

  50. Closely related hybridizing species are ideal systems for identifying genomic regions underlying adaptive divergence. Although gene expression plays a central role in determining ecologically-based phenotypic ...

    Authors: Bárbara Simões Santos Leal, Marcelo Mendes Brandão, Clarisse Palma-Silva and Fabio Pinheiro

    Citation: BMC Plant Biology 2020 20:554

    Content type: Research article

    Published on:

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