Achievements and prospects of genomics-assisted breeding in three legume crops of the semi-arid tropics
Rajeev K. Varshney,S. Murali Mohan,Pooran M. Gaur,N. V. P. R. Gangarao,Manish K. Pandey,Manish K. Pandey,Abhishek Bohra,S. L. Sawargaonkar,Annapurna Chitikineni,Paul Kimurto,Pasupuleti Janila,Kulbhushan Saxena,Asnake Fikre,Mamta Sharma,Abhishek Rathore,Aditya Pratap,Shailesh Tripathi,Subhojit Datta,Sushil K. Chaturvedi,Nalini Mallikarjuna,G. Anuradha,Anita Babbar,A. K. Choudhary,M. B. Mhase,Ch. Bharadwaj,D. M. Mannur,P. N. Harer,Baozhu Guo,Xuanqiang Liang,N. Nadarajan,C. L. L. Gowda +30 more
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TLDR
The use of integrated genomics and breeding approach in these legume crops to enhance crop productivity in marginal environments ensuring food security in developing countries is proposed.About:
This article is published in Biotechnology Advances.The article was published on 2013-12-01 and is currently open access. It has received 278 citations till now. The article focuses on the topics: Molecular breeding.read more
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Genotyping-by-sequencing based genetic mapping reveals large number of epistatic interactions for stem rot resistance in groundnut
Sneha M. Dodia,Binal Joshi,Sunil S. Gangurde,P. P. Thirumalaisamy,Gyan P. Mishra,Gyan P. Mishra,Dayama Narandrakumar,Pooja Soni,AL Rathnakumar,Jentilal R. Dobaria,Chandramohan Sangh,Annapurna Chitikineni,Sumitra Chanda,Manish K. Pandey,Rajeev K. Varshney,Radhakrishnan Thankappan +15 more
TL;DR: Genetic mapping identified large number of epistatic interactions indicating the complex genetic architecture for stem rot disease resistance and identified genomic regions and candidate genes that will further validate and facilitate marker development to deploy GAB for developing stemRot disease resistance groundnut varieties.
Journal ArticleDOI
Genomics and molecular breeding in lesser explored pulse crops: current trends and future opportunities.
TL;DR: This article examines the prospects of genomics assisted integrated breeding to enhance and stabilize crop yields and outlines the recent progress made in genomics of these lesser explored pulse crops.
Journal ArticleDOI
Legume genomics and transcriptomics: From classic breeding to modern technologies
Muhammad Afzal,Salem S. Alghamdi,Hussein H. Migdadi,Muhammad Altaf Khan,Nurmansyah,Shaher Bano Mirza,Shaher Bano Mirza,Ehab H. El-Harty +7 more
TL;DR: The path from classical breeding to new emerging genomics tools, which will trigger and accelerate genomics-assisted breeding for recognition of novel genes for yield and quality characters for sustainable legume crop production are presented.
Journal ArticleDOI
Steady expression of high oleic acid in peanut bred by marker-assisted backcrossing for fatty acid desaturase mutant alleles and its effect on seed germination along with other seedling traits.
S. K. Bera,J. H. Kamdar,S. V. Kasundra,S. V. Patel,M. D. Jasani,A.K. Maurya,P. Dash,Ajay B. Chandrashekar,Kirti Rani,N. Manivannan,Pasupuleti Janila,Manish K. Pandey,R. P. Vasanthi,K. L. Dobariya,T. Radhakrishnan,Rajeev K. Varshney +15 more
TL;DR: Marker-assisted backcrossing was employed for the introgression of two FAD2 mutant alleles from SunOleic95R into the chromosome of ICGV06100, a high oil content peanut breeding line, and the most significant outcome was the stable expression of oil-content, oleic acid, linoleic Acid, and palmitic acid in the marker-assistedBackcrossing-introgression lines over the locations.
Journal ArticleDOI
Identification of two major quantitative trait locus for fresh seed dormancy using the diversity arrays technology and diversity arrays technology-seq based genetic map in Spanish-type peanuts
Manish K. Vishwakarma,Manish K. Pandey,Yaduru Shasidhar,Surendra S. Manohar,P. Nagesh,Pasupuleti Janila,Rajeev K. Varshney +6 more
TL;DR: Quantitative trait locus (QTL) analysis identified two major QTLs, namely qfsd-1 and qFSd-2 explaining 22.14% and 71.21% of phenotypic variation, respectively, which, after validation in different genetic backgrounds, may be useful for molecular breeding for FSD in peanut.
References
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The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)
Gerald A. Tuskan,Gerald A. Tuskan,Stephen P. DiFazio,Stephen P. DiFazio,Stefan Jansson,Joerg Bohlmann,Igor V. Grigoriev,Uffe Hellsten,Nicholas H. Putnam,Steven G. Ralph,Stephane Rombauts,Asaf Salamov,Jacquie Schein,Lieven Sterck,Andrea Aerts,Rishikeshi Bhalerao,Rishikesh P. Bhalerao,Damien Blaudez,Wout Boerjan,Annick Brun,Amy M. Brunner,Victor Busov,Malcolm M. Campbell,John E. Carlson,Michel Chalot,Jarrod Chapman,G.-L. Chen,Dawn Cooper,Pedro M. Coutinho,Jérémy Couturier,Sarah F. Covert,Quentin C. B. Cronk,R. Cunningham,John M. Davis,Sven Degroeve,Annabelle Déjardin,Claude W. dePamphilis,John C. Detter,Bill Dirks,Inna Dubchak,Inna Dubchak,Sébastien Duplessis,Jürgen Ehlting,Brian E. Ellis,Karla C Gendler,David Goodstein,Michael Gribskov,Jane Grimwood,Andrew Groover,Lee E. Gunter,Björn Hamberger,Berthold Heinze,Yrjö Helariutta,Yrjö Helariutta,Yrjö Helariutta,Bernard Henrissat,D. Holligan,Robert A. Holt,Wenyu Huang,N. Islam-Faridi,Steven J.M. Jones,M. Jones-Rhoades,Richard A. Jorgensen,Chandrashekhar P. Joshi,Jaakko Kangasjärvi,Jan Karlsson,Colin T. Kelleher,Robert Kirkpatrick,Matias Kirst,Annegret Kohler,Udaya C. Kalluri,Frank W. Larimer,Jim Leebens-Mack,Jean-Charles Leplé,Philip F. LoCascio,Y. Lou,Susan Lucas,Francis Martin,Barbara Montanini,Carolyn A. Napoli,David R. Nelson,C D Nelson,Kaisa Nieminen,Ove Nilsson,V. Pereda,Gary F. Peter,Ryan N. Philippe,Gilles Pilate,Alexander Poliakov,J. Razumovskaya,Paul G. Richardson,Cécile Rinaldi,Kermit Ritland,Pierre Rouzé,D. Ryaboy,Jeremy Schmutz,J. Schrader,Bo Segerman,H. Shin,Asim Siddiqui,Fredrik Sterky,Astrid Terry,Chung-Jui Tsai,Edward C. Uberbacher,Per Unneberg,Jorma Vahala,Kerr Wall,Susan R. Wessler,Guojun Yang,T. Yin,Carl J. Douglas,Marco A. Marra,Göran Sandberg,Y. Van de Peer,Daniel S. Rokhsar,Daniel S. Rokhsar +115 more
TL;DR: The draft genome of the black cottonwood tree, Populus trichocarpa, has been reported in this paper, with more than 45,000 putative protein-coding genes identified.
Journal ArticleDOI
Genome sequence of the palaeopolyploid soybean
Jeremy Schmutz,Steven B. Cannon,Jessica A. Schlueter,Jessica A. Schlueter,Jianxin Ma,Therese Mitros,William Nelson,David L. Hyten,Qijian Song,Qijian Song,Jay J. Thelen,Jianlin Cheng,Dong Xu,Uffe Hellsten,Gregory D. May,Yeisoo Yu,Tetsuya Sakurai,Taishi Umezawa,Madan K. Bhattacharyya,Devinder Sandhu,Babu Valliyodan,Erika Lindquist,Myron Peto,David Grant,Shengqiang Shu,David Goodstein,Kerrie Barry,Montona Futrell-Griggs,Brian Abernathy,Jianchang Du,Zhixi Tian,Liucun Zhu,Navdeep Gill,Trupti Joshi,Marc Libault,Ananad Sethuraman,Xue-Cheng Zhang,Kazuo Shinozaki,Henry T. Nguyen,Rod A. Wing,Perry B. Cregan,James E. Specht,Jane Grimwood,Daniel S. Rokhsar,Gary Stacey,Randy C. Shoemaker,Scott A. Jackson +46 more
TL;DR: An accurate soybean genome sequence will facilitate the identification of the genetic basis of many soybean traits, and accelerate the creation of improved soybean varieties.
Journal ArticleDOI
The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
Olivier Jaillon,Jean-Marc Aury,Benjamin Noel,Alberto Policriti,Christian Clepet,Alberto Casagrande,Nathalie Choisne,Sébastien Aubourg,Nicola Vitulo,Claire Jubin,Alessandro Vezzi,Fabrice Legeai,Philippe Hugueney,Corinne Dasilva,David S. Horner,Erica Mica,Delphine Jublot,Julie Poulain,Clémence Bruyère,Alain Billault,Béatrice Segurens,Michel Gouyvenoux,Edgardo Ugarte,Federica Cattonaro,Véronique Anthouard,Virginie Vico,Cristian Del Fabbro,Michael Alaux,Gabriele Di Gaspero,Vincent Dumas,Nicoletta Felice,Sophie Paillard,Irena Juman,Marco Moroldo,Simone Scalabrin,Aurélie Canaguier,Isabelle Le Clainche,G Malacrida,Eléonore Durand,Graziano Pesole,Valérie Laucou,Philippe Chatelet,Didier Merdinoglu,Massimo Delledonne,Mario Pezzotti,Alain Lecharny,Claude Scarpelli,François Artiguenave,M. Enrico Pè,Giorgio Valle,Michele Morgante,Michel Caboche,Anne-Françoise Adam-Blondon,Jean Weissenbach,Francis Quetier,Patrick Wincker +55 more
TL;DR: A high-quality draft of the genome sequence of grapevine is obtained from a highly homozygous genotype, revealing the contribution of three ancestral genomes to the grapevine haploid content and explaining the chronology of previously described whole-genome duplication events in the evolution of flowering plants.
Journal ArticleDOI
Nuclear DNA content of some important plant species
K. Arumuganathan,E. D. Earle +1 more
TL;DR: This survey identified several horticultural crops in a variety of families with genomes only two or three times as large asArabidopsis and several fruit trees (a pricot, cherry, mango, orange, papaya, and peach) that should facilitate molecular studies of these crops.
Journal ArticleDOI
The genome of the cucumber, Cucumis sativus L.
Sanwen Huang,Ruiqiang Li,Zhonghua Zhang,Li Li,Xingfang Gu,Wei Fan,William J. Lucas,Xiaowu Wang,Bingyan Xie,Peixiang Ni,Yuanyuan Ren,Hongmei Zhu,Jun Li,Kui Lin,Weiwei Jin,Zhangjun Fei,Guangcun Li,Jack E. Staub,Andrzej Kilian,Edwin A. G. van der Vossen,Yang Wu,Jie Guo,Jun He,Zhiqi Jia,Yi Ren,Geng Tian,Yao Lu,Jue Ruan,Wubin Qian,Mingwei Wang,Quanfei Huang,Bo Li,Zhaoling Xuan,Jianjun Cao,Asan,Zhigang Wu,Juanbin Zhang,Qingle Cai,Yinqi Bai,Bowen Zhao,Yonghua Han,Ying Li,Xuefeng Li,Shenhao Wang,Qiuxiang Shi,Shiqiang Liu,Won Kyong Cho,Jae-Yean Kim,Yong Xu,Katarzyna Heller-Uszynska,Han Miao,Zhouchao Cheng,Shengping Zhang,Jian Wu,Yuhong Yang,Houxiang Kang,Man Li,Huiqing Liang,Xiaoli Ren,Zhongbin Shi,Ming Wen,Min Jian,Hailong Yang,Guojie Zhang,Zhentao Yang,Rui Chen,Shifang Liu,Jianwen Li,Lijia Ma,Hui Liu,Yan Zhou,Jing Zhao,Xiaodong Fang,Guoqing Li,Lin Fang,Yingrui Li,Dongyuan Liu,Hongkun Zheng,Yong Zhang,Nan Qin,Zhuo Li,Guohua Yang,Shuang Yang,Lars Bolund,Karsten Kristiansen,Hancheng Zheng,Shaochuan Li,Xiuqing Zhang,Huanming Yang,Jing Wang,Rifei Sun,Zhang Baoxi,Shuzhi Jiang,Jun Wang,Yongchen Du,Songgang Li +95 more
TL;DR: This study establishes that five of the cucumber's seven chromosomes arose from fusions of ten ancestral chromosomes after divergence from Cucumis melo, and identifies 686 gene clusters related to phloem function.
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