"1313","31","archive","6",,,"disk0/00/00/13/13","2011-09-12 04:12:49","2018-05-08 08:00:22","2011-09-12 04:12:49","article",,,"show","Library-ICRISAT@CGIAR.ORG",,,"","","","","","","","","","","0",,,"Hiremath","P J","","","","","","","Hiremath","P J","","","","",,,,,"","",,,,,"","","ICRISAT(Patancheru)","India","Large-scale transcriptome analysis in chickpea (Cicer
arietinum L.), an orphan legume crop of the semi-arid tropics of Asia and Africa","pub","s1.1","","","public",,,"chickpea, next generation sequencing, transcriptome, drought-responsive genes, markers",,"The authors are thankful to the CGIAR Generation Challenge
Programme (GCP), Mexico; the Bill and Melinda Gates Foundation
(BMGF), USA; the National Fund of Indian Council of Agricultural
Research (ICAR) and the Department of Biotechnology
(DBT) of Government of India for financial support of the study.
Thanks are also due to Spurthi Nayak and Mahendar Thudi of
ICRISAT and Nathan Weeks of USDA-ARS for their help while
carrying out this study.","Chickpea (Cicer arietinum L.) is an important legume crop in the semi-arid regions of Asia and Africa. Gains in crop productivity have been low however, particularly because of biotic and abiotic stresses. To help enhance crop productivity using molecular breeding techniques, next generation sequencing technologies such as Roche/454 and Illumina/Solexa were used to determine the sequence of most gene transcripts and to identify drought-responsive genes and gene-based molecular markers. A total of 103 215 tentative unique sequences (TUSs) have been produced from 435 018 Roche/454 reads and 21 491 Sanger expressed sequence tags (ESTs). Putative functions were determined for 49 437 (47.8%) of the TUSs, and gene ontology assignments were determined for 20 634 (41.7%) of the TUSs. Comparison of the chickpea TUSs with the Medicago truncatula genome assembly (Mt 3.5.1 build) resulted in 42 141 aligned TUSs with putative gene structures (including 39 281 predicted intron/splice junctions). Alignment of ∼37 million Illumina/Solexa tags generated from drought-challenged root tissues of two chickpea genotypes against the TUSs identified 44 639 differentially expressed TUSs. The TUSs were also used to identify a diverse set of markers, including 728 simple sequence repeats (SSRs), 495 single nucleotide polymorphisms (SNPs), 387 conserved orthologous sequence (COS) markers, and 2088 intron-spanning region (ISR) markers. This resource will be useful for basic and applied research for genome analysis and crop improvement in chickpea.","2011","published",,"Plant Biotechnology Journal","9",,"Blackwell Publishing",,"922-931",,,,,,,,,,,"TRUE",,,,,,,,"","http://dx.doi.org/10.1111/j.1467-7652.2011.00625.x","http://scholar.google.co.in/scholar?as_q=Large-scale+transcriptome+analysis+in+chickpea+%28Cicer+arietinum+L.%29%2C+an+orphan+legume+crop+of+the+semi-arid+tropics+of+Asia+and+Africa&num=10&btnG=Search+Scholar&as_epq=&as_oq=&as_eq=&as_occt=title&as_sauthor","author",,"Generation Challenge Programme","",,,,,,"",,,,,,,"",,,,,"",,,,,"","",,,,,"","",,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Farmer","A","","",,,,,"Kudapa","H","","",,,,,,,,,,,,,,,"Osmania University(Hyderabad) ","USA",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Bill and Melinda Gates Foundation",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Cannon","S B","","",,,,,"Tuteja","R","","",,,,,,,,,,,,,,,"National Centre for Genome Resources(Santa Fe)","Germany",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Indian Council of Agricultural Research",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Woodward","J","","",,,,,"Kumar","A","","",,,,,,,,,,,,,,,"United States Department of Agriculture-Agricultural Research Service(Ames)","Mexico",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Government of India - Department of Biotechnology",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Kudapa","H","","",,,,,"Bhanuprakash","A","","",,,,,,,,,,,,,,,"Iowa State University(Ames)",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Tuteja","R","","",,,,,"Gujaria","N","","",,,,,,,,,,,,,,,"National Research Centre on Plant Biotechnology(New Delhi)",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Kumar","A","","",,,,,"Krishnamurthy","L","","",,,,,,,,,,,,,,,"Max Planck Institute for Molecular Plant Physiology(Potsdam-Golm)",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Bhanuprakash","A","","",,,,,"Gaur","P M","","",,,,,,,,,,,,,,,"J. Craig Venter Institute(Rockville)",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Mulaosmanovic","B","","",,,,,"Shah","T","","",,,,,,,,,,,,,,,"University of California(Davis) ",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Gujaria","N","","",,,,,"Varshney","R K","","",,,,,,,,,,,,,,,"Generation Challenge Program(Mexico)",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Krishnamurthy","L","","",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Gaur","P M","","",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Kavi Kishor","P B","","",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Shah","T","","",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Srinivasan","R","","",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Lohse","M","","",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Xiao","Y","","",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Town","C D","","",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Cook","D R","","",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"May","G D","","",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,
"1313",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,"Varshney","R K","","",,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,,