Genome-wide identification and evolutionary analysis of nucleotide-binding site-encoding resistance genes in Lotus japonicus (Fabaceae)

文献类型： 外文期刊

第一作者： Song, H.

作者： Song, H.;Wang, P. F.;Li, T. T.;Xia, H.;Zhao, S. Z.;Hou, L.;Zhao, C. Z.

作者机构：

关键词： Lotus japonicus;Nucleotide-binding site disease resistance genes;Gene duplication;Selection pressure;Codon usage bias

期刊名称：GENETICS AND MOLECULAR RESEARCH （ 影响因子：0.764； 五年影响因子：0.912 ）

ISSN： 1676-5680

年卷期： 2015 年 14 卷 4 期

页码：

收录情况： SCI

摘要： Nucleotide-binding site (NBS) disease resistance genes play a crucial role in plant defense responses against pathogens and insect pests. Many NBS-encoding genes have been detected in Lotus japonicus, an important forage crop in many parts of the world. However, most NBS genes identified so far in L. japonicus were only partial sequences. We identified 45 full-length NBS-encoding genes in the L. japonicus genome, and analyzed gene duplications, motifs, and the molecular phylogeny to further understand the NBS gene family. We found that gene duplication events rarely occur in L. japonicus NBS-encoding (LjNBS) genes. In addition, LjNBS genes were subjected to selection pressure, and codon usage bias was evident. We tested for purifying selection (specifically in the CC-NBS-LRR and TIR-NBS-LRR groups), and found strong purifying selection in the TIR-domain-containing sequences, indicating that the CC-NBS-LRR group is more likely to undergo expansion than the TIR-NBS-LRR group. Moreover, our results showed that both selection and mutation contributed to LjNBS codon usage bias, but mutational bias was the major influence on codon usage.

分类号：

  • 相关文献

[1]Evolution and Expansion of the Prokaryote-Like Lipoxygenase Family in the Brown Alga Saccharina japonica. Teng, Linhong,Han, Wentao,Fan, Xiao,Xu, Dong,Zhang, Xiaowen,Ye, Naihao,Teng, Linhong,Ye, Naihao,Dittami, Simon M.,Dittami, Simon M.. 2017

[2]Genistein-Specific G6DT Gene for the Inducible Production of Wighteone in Lotus japonicus. Liu, Jinyue,Jiang, Wenbo,Xia, Yaying,Pang, Yongzhen,Liu, Jinyue,Jiang, Wenbo,Xia, Yaying,Pang, Yongzhen,Liu, Jinyue,Liu, Jinyue,Wang, Xuemin,Pang, Yongzhen,Shen, Guoan. 2018

[3]Involvement of three putative glucosyltransferases from the UGT72 family in flavonol glucoside/rhamnoside biosynthesis in Lotus japonicus seeds. Yin, Qinggang,Shen, Guoan,Pang, Yongzhen,Yin, Qinggang,Chang, Zhenzhan,Tang, Yuhong,Gao, Hongwen.

[4]Selection pressures have driven population differentiation of domesticated and wild common carp (Cyprinus carpio L.). Xu, L. H.,Wang, C. H.,Wang, J.,Ma, Y. Q.,Yang, X. X.,Dong, Z. J.. 2012

[5]Regeneration of transgenic plants from cell suspensions of transformed apple (Malus X domestica Borkh. cv. Gala). Wu, Yongjie,Li, Yusheng,Wu, Yaqin,Cheng, Hehe,Zhao, Yanhua,Li, Yunhe,Li, Yin.

[6]Evolution and homologous recombination of the hemagglutinin-esterase gene sequences from porcine torovirus. Cong, Yingying,Wang, Xin,Suo, Siqingaowa,Ren, Yudong,Ren, Xiaofeng,Zarlenga, Dante S.,Richt, Juergen A.,Wang, Yang,Wang, Jingfei,Wang, Jingfei.

[7]Sensitivity, resistance stability, and cross-resistance of Plasmopara viticola to four different fungicides. Bi, Qiuyan,Ma, Zhiqiang,Bi, Qiuyan,Ma, Zhiqiang.

[8]Global Analysis of WRKY Genes and Their Response to Dehydration and Salt Stress in Soybean. Song, Hui,Wang, Pengfei,Hou, Lei,Zhao, Shuzhen,Zhao, Chuanzhi,Xia, Han,Li, Pengcheng,Zhang, Ye,Bian, Xiaotong,Wang, Xingjun. 2016

[9]Non-uniqueness of factors constraint on the codon usage in Bombyx mori. Jia, Xian,Zheng, Hao,Qi, Qi,Wei, Lei,Sun, Jingchen,Jia, Xian,Zheng, Hao,Qi, Qi,Wei, Lei,Sun, Jingchen,Liu, Shuyu,He, Jian,Li, Bo,Zhao, Taiyi. 2015

[10]Codon Usage Bias and Determining Forces in Taenia solium Genome. Yang, Xing,Luo, Xuenong,Ling, Houjun,Zhang, Xichen,Cai, Xuepeng,Yang, Xing,Ma, Xusheng,Cai, Xuepeng. 2015

[11]Synonymous codon usage patterns in different parasitic platyhelminth mitochondrial genomes. Chen, L.,Yang, D. Y.,Nong, X.,Huang, X.,Xie, Y.,Fu, Y.,Zheng, W. P.,Zhang, R. H.,Wu, X. H.,Gu, X. B.,Wang, S. X.,Yang, G. Y.,Liu, T. F.,Peng, X. R.. 2013

[12]Mapping codon usage of the translation initiation region in porcine reproductive and respiratory syndrome virus genome. Su, Jun-hong,Li, Ji-dong,Ma, Xu-sheng,Dou, Yong-xi,Luo, Xue-nong,Cai, Xue-peng,Ma, Xiao-xia,He, Ya-li,Li, Ji-dong. 2011

[13]Multiple Evolutionary Selections Involved in Synonymous Codon Usages in the Streptococcus agalactiae Genome. Ma, Yan-Ping,Li, Yu-Gu,Ma, Yan-Ping,Ke, Hao,Liang, Zhi-Ling,Liu, Zhen-Xing,Hao, Le,Ma, Jiang-Yao. 2016

[14]Genetic analysis of the PB1-F2 gene of equine influenza virus. Lu, Gang,Guo, Wei,Qi, Ting,Ma, Jian,Zhao, Shihua,Tian, Zhige,Pan, Jialiang,Zhu, Chao,Wang, Xiaojun,Xiang, Wenhua.

[15]Analysis of Synonymous Codon Usage in Dengue Viruses. Ma, Jun-Jun,Zhao, Feng,Zhang, Jie,Zhou, Jian-Hua,Ma, Li-Na,Ding, Yao-Zhong,Chen, Hao-Tai,Gu, Yuan-Xing,Liu, Yong-Sheng.

[16]Characteristics of codon usage bias in two regions downstream of the initiation codons of foot-and-mouth disease virus. Zhou, Jian-hua,Zhang, Jie,Ding, Yao-zhong,Chen, Hao-tai,Ma, Li-na,Liu, Yong-sheng.

[17]The characteristics of the synonymous codon usage in enterovirus 71 virus and the effects of host on the virus in codon usage pattern. Liu, Yong-sheng,Zhou, Jian-hua,Chen, Hao-tai,Ma, Li-na,Ding, Yao-zhong,Zhang, Jie,Pejsak, Zygmunt.

[18]Effects of nucleotide usage on the synonymous codon usage patterns of biofilm-associated genes in Haemophilus parasuis. Wang, L. Y.,Ma, L. N.,Liu, Y. S.. 2016

[19]Analysis of codon usage pattern in Taenia saginata based on a transcriptome dataset. Yang, Xing,Luo, Xuenong,Cai, Xuepeng,Yang, Xing,Cai, Xuepeng. 2014

[20]Comprehensive analysis of the overall codon usage patterns in equine infectious anemia virus. Yin, Xin,Lin, Yuezhi,Cai, Weigang,Wang, Xiaojun,Yin, Xin,Wei, Ping. 2013

作者其他论文 更多>>
  • What are the 100 most cited fungal genera?

    作者：Bhunjun, C. S.;Hurdeal, V. G.;Gonkhom, D.;Chethana, K. W. T.;Gajanayake, A. J.;Gomdola, D.;Jayawardena, R. S.;Pem, D.;Phonemany, M.;Rathnayaka, A. R.;Thongklang, N.;Wijesinghe, S. N.;Hyde, K. D.;Bhunjun, C. S.;Chen, Y. J.;Phukhamsakda, C.;Hurdeal, V. G.;Gonkhom, D.;Wei, D. P.;Aiphuk, W.;Chethana, K. W. T.;Gajanayake, A. J.;Gomdola, D.;Jayawardena, R. S.;Lin, C. G.;Luangharn, T.;Pem, D.;Phonemany, M.;Rathnayaka, A. R.;Thongklang, N.;Wijesinghe, S. N.;Hyde, K. D.;Boekhout, T.;Groenewald, J. Z.;Francisco, E. C.;Hagen, F.;Houbraken, J.;Robert, V.;Bensch, K.;Costa, M. M.;Dijksterhuis, J.;Kandemir, H.;Sandoval-Denis, M.;Theelen, B.;van den Brule, T.;Zhao, L.;Crous, P. W.;Boekhout, T.;Groenewald, M.;McKenzie, E. H. C.;Francisco, E. C.;Frisvad, J. C.;Luangsa-ard, J.;Mongkolsamrit, S.;Kobmoo, N.;Perrone, G.;Visagie, C. M.;Yilmaz, N.;Crous, P. W.;Bai, F. Y.;Cai, L.;Chen, Q.;He, M. Q.;Hou, L.;Wang, X. W.;Zhao, R. L.;Bai, F. Y.;Zhao, R. L.;Blaszkowski, J.;Braun, U.;de Souza, F. A.;de Queiroz, M. B.;Goto, B. T.;Dutta, A. K.;Roy, N.;Guarnaccia, V.;Hagen, F.;Lachance, M. A.;Li, J. J.;Luo, K. Y.;Wang, D. Q.;Zhao, C. L.;Magurno, F.;Tibpromma, S.;Wanasinghe, D. N.;Phookamsak, R.;Wei, D. P.;Wei, D. P.;Liu, X. B.;Ajayi-Oyetunde, O.;Arantes, T. D.;Bezerra, J. D. P.;Araujo, J. C.;Calaca, F. J. S.;Yang, Z. L.;Calaca, F. J. S.;Begerow, D.;Bakhshi, M.;Barbosa, R. N.;Souza-Motta, C. M.;Behrens, F. H.;Fischer, M.;Bilanski, P.;Jankowiak, R.;Kowalski, T.;Bradley, C. A.;Bubner, B.;Burgess, T. I.;Scott, P.;Cadez, N.;Calaca, F. J. S.;Campbell, L. J.;Chaverri, P.;Chaverri, P.;Chaverri, P.;Chen, Y. Y.;Coetzee, B.;Mkhwanazi, G. J. Makhathini;Mostert, L.;Coetzee, B.;Custodio, F. A.;Dai, Y. C.;Wu, F.;Damm, U.;Santiago, A. L. C. M. A.;Angelini, R. M. De Miccolis;Pollastro, S.;Dissanayake, A. J.;Lin, C. G.;Liu, J. K.;Maharachchikumbura, S. S. N.;Doilom, M.;Dong, W.;Manawasinghe, I. S.;Hyde, K. D.;Alvarez-Duarte, E.;Gene, J.;Iturrieta-Gonzalez, I.;Stchigel, A. M.;Gene, J.;Iturrieta-Gonzalez, I.;Stchigel, A. M.;Gomdola, D.;Pem, D.;Phonemany, M.;Rathnayaka, A. R.;Wijesinghe, S. N.;Gomes, A. A. M.;Hausner, G.;Hou, L.;Iturrieta-Gonzalez, I.;Jami, F.;Jayawardena, R. S.;Kiss, L.;Shivas, R. G.;Kiss, L.;Landi, L.;Romanazzi, G.;Liu, X. B.;Liu, X. B.;Yang, Z. L.;Loizides, M.;Marin-Felix, Y.;Marin-Felix, Y.;Welti, S.;McTaggart, A. R.;Moreau, P. A.;Morozova, O. V.;Morozova, O. V.;Svetasheva, T. Y.;Osiewacz, H. D.;Pordel, A.;Poyntner, C.;Phillips, A. J. L.;Promputtha, I.;Rodrigues, A. M.;Rothmann, L.;Salgado-Salazar, C.;Saupe, S. J.;Scholler, M.;Scott, P.;Silar, P.;Silva-Filho, A. G. S.;Silva-Filho, A. G. S.;Sterflinger, K.;Summerbell, R. C.;Summerbell, R. C.;Takamatsu, S.;Theodoro, C.;Thines, M.;Torres, R.;Turchetti, B.;Turchetti, B.;van den Brule, T.;Wartchow, F.;Xu, R.;Xu, R.;Yurkov, A.;Zhou, N.;Hyde, K. D.;Hyde, K. D.;Crous, P. W.

    关键词：Bibliometric analysis; fungi; highly-cited; Web of Science

  • The Mechanisms of Pod Zone Nitrogen Application on Peanut Pod Yield

    作者：Hou, L.;Lin, R. X.;Wang, X. J.;Zhao, C. Z.;Zhu, X. J.;Li, C. S.;Li, G. H.;Hou, L.;Lin, R. X.;Wang, X. J.;Li, H.;Zhu, X. J.

    关键词：Arachis hypogaea; peanut; nitrogen application; pod zone; pod yield; molecular mechanism

  • Establishment of an Efficient Screening System in Gene Transformation of High Oleic Acid Peanut Using AhFAD2B as a Reporter Gene

    作者：Li, W. J.;Yang, L.;Zhao, C. Z.;Wang, B. S.;Wang, X. J.;Zhao, S. Z.;Li, W. J.;Yang, L.;Zhao, C. Z.;Wang, B. S.;Wang, X. J.;Zhao, S. Z.;Li, W. J.;Yang, L.;Zhao, C. Z.;Li, A. Q.;Li, C. S.;Wang, X. J.;Zhao, S. Z.;Li, W. J.;Yang, L.;Zhao, C. Z.;Li, A. Q.;Li, C. S.;Wang, X. J.;Zhao, S. Z.

    关键词：Arachis hypogaea; Delta 12-fatty acid desaturase (FAD); novel reporter gene; peanut transformation; near infrared reflectance spectroscopy; oleic acid content

  • Establishment of an Efficient Screening System in Gene Transformation of High Oleic Acid Peanut Using AhFAD2B as a Reporter Gene

    作者：Li, W. J.;Yang, L.;Zhao, C. Z.;Wang, B. S.;Wang, X. J.;Zhao, S. Z.;Li, W. J.;Yang, L.;Zhao, C. Z.;Wang, B. S.;Wang, X. J.;Zhao, S. Z.;Li, W. J.;Yang, L.;Zhao, C. Z.;Li, A. Q.;Li, C. S.;Wang, X. J.;Zhao, S. Z.;Li, W. J.;Yang, L.;Zhao, C. Z.;Li, A. Q.;Li, C. S.;Wang, X. J.;Zhao, S. Z.

    关键词：Arachis hypogaea; Delta 12-fatty acid desaturase (FAD); novel reporter gene; peanut transformation; near infrared reflectance spectroscopy; oleic acid content

  • Pre-selecting markers based on fixation index scores improved the power of genomic evaluations in a combined Yorkshire pig population

    作者：Ye, S.;Zhang, Z.;Li, J.;Song, H.;Ding, X.

    关键词：genome selection; pre-selection variants; prediction accuracy; single nucleotide polymorphisms; whole-genome sequencing

  • ROS Produced via BsRBOHD Plays an Important Role in Low Temperature-Induced Anthocyanin Biosynthesis in Begonia semperflorens

    作者：Zhang, K. M.;Tian, G.;Liu, J.;Li, Y. H.;Wang, P. F.;Li, X. H.;Zhang, Z. Z.;Xie, J. F.

    关键词：Begonia semperflorens; low temperature; anthocyanin; BsRBOHD; ROS; chlorophyll fluorescence

  • Genome-Wide Identification and Expression Analysis of the Cytidine Deaminase Subfamily in Rice

    作者：Liu, W.;Wang, P. F.;Li, Z.;Wang, Q. G.;Yao, F. Y.;Yang, L. Q.;Pan, J. W.;Wang, Y. Y.;Liu, W.;Wang, P. F.

    关键词：Oryza sativa; cytidine deaminase (CDA); phylogeny; gene structure; expression pattern; biotic and abiotic stress

微信小程序