eprintid: 4132
rev_number: 23
eprint_status: archive
userid: 30
dir: disk0/00/00/41/32
datestamp: 2011-11-19 06:15:06
lastmod: 2018-05-08 08:01:05
status_changed: 2011-11-19 06:15:06
type: article
metadata_visibility: show
contact_email: Library-ICRISAT@CGIAR.ORG
item_issues_count: 0
creators_name: Thudi, M
creators_name: Bohra, A
creators_name: Nayak, S N
creators_name: Varghese, N
creators_name: Shah, T M
creators_name: Penmetsa, R V
creators_name: Thirunavukkarasu, N
creators_name: Gudipati, S
creators_name: Gaur, P M
creators_name: Kulwal, P L
creators_name: Upadhyaya, H D
creators_name: Kavi Kishor, P B
creators_name: Winter, P
creators_name: Kahl, G
creators_name: Town, C D
creators_name: Kilian, A
creators_name: Cook, D R
creators_name: Varshney, R K
icrisatcreators_name: Thudi, M
icrisatcreators_name: Bohra, A
icrisatcreators_name: Nayak, S N
icrisatcreators_name: Varghese, N
icrisatcreators_name: Shah, T M
icrisatcreators_name: Gudipati, S
icrisatcreators_name: Gaur, P M
icrisatcreators_name: Upadhyaya, H D
icrisatcreators_name: Varshney, R K
affiliation: ICRISAT(Patancheru)
affiliation: Osmania University(Hyderabad)
affiliation: University of California Davis(Davis)
affiliation: IARI(New Delhi)
affiliation: Mahatma Phule Agricultural University(Rahuri)
affiliation: Frankfurt am Main
affiliation: University of Frankfurt(Frankfurt)
affiliation: JCVI(Rockville)
country: India
country: USA
country: Germany
title: Novel SSR Markers from BAC-End Sequences, DArT Arrays and a Comprehensive Genetic Map with 1,291 Marker Loci for Chickpea (Cicer arietinum L.)
ispublished: pub
subjects: s1.1
full_text_status: public
note: Authors are thankful to A BhanuPrakash, Ashish Kumar and Neha Gujaria for their help in various ways while preparing this MS. Thanks are also due to several collaborators for sharing their published/unpublished mapping data
abstract: Chickpea (Cicer arietinum L.) is the third most important cool season food legume, cultivated in arid and semi-arid regions of the world. The goal of this study was to develop novel molecular markers such as microsatellite or simple sequence repeat (SSR) markers from bacterial artificial chromosome (BAC)-end sequences (BESs) and diversity arrays technology (DArT) markers, and to construct a high-density genetic map based on recombinant inbred line (RIL) population ICC 4958 (C. arietinum)×PI 489777 (C. reticulatum). A BAC-library comprising 55,680 clones was constructed and 46,270 BESs were generated. Mining of these BESs provided 6,845 SSRs, and primer pairs were designed for 1,344 SSRs. In parallel, DArT arrays with ca. 15,000 clones were developed, and 5,397 clones were found polymorphic among 94 genotypes tested. Screening of newly developed BES-SSR markers and DArT arrays on the parental genotypes of the RIL mapping population showed polymorphism with 253 BES-SSR markers and 675 DArT markers. Segregation data obtained for these polymorphic markers and 494 markers data compiled from published reports or collaborators were used for constructing the genetic map. As a result, a comprehensive genetic map comprising 1,291 markers on eight linkage groups (LGs) spanning a total of 845.56 cM distance was developed (http://cmap.icrisat.ac.in/cmap/sm/cp/thu​di/). The number of markers per linkage group ranged from 68 (LG 8) to 218 (LG 3) with an average inter-marker distance of 0.65 cM. While the developed resource of molecular markers will be useful for genetic diversity, genetic mapping and molecular breeding applications, the comprehensive genetic map with integrated BES-SSR markers will facilitate its anchoring to the physical map (under construction) to accelerate map-based cloning of genes in chickpea and comparative genome evolution studies in legumes.


date: 2011
date_type: published
publication: PLoS ONE
volume: 6
number: 11
publisher: PLoS ONE
pagerange: 1-12
refereed: TRUE
issn: 1932-6203
official_url: http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0027275#aff1
related_url_url: http://scholar.google.co.in/scholar?hl=en&q=allintitle%3A+%22Novel+SSR+Markers+from+BAC-End+Sequences%2C+DArT+Arrays+and+a+Comprehensive+Genetic+Map+with+1%2C291+Marker+Loci+for+Chickpea+%28Cicer+arietinum+L.%29%22&btnG=Search&as_sdt=0%2C5&as_ylo=&as_vis=
related_url_type: author
funders: Consultative Group for International Agricultural Research
funders: Bill and Melinda Gates Foundation
funders: Indian Council of Agricultural Research-National Fund for Basic and Strategic Research in Agriculture
citation:   Thudi, M and Bohra, A and Nayak, S N and Varghese, N and Shah, T M and Penmetsa, R V and Thirunavukkarasu, N and Gudipati, S and Gaur, P M and Kulwal, P L and Upadhyaya, H D and Kavi Kishor, P B and Winter, P and Kahl, G and Town, C D and Kilian, A and Cook, D R and Varshney, R K  (2011) Novel SSR Markers from BAC-End Sequences, DArT Arrays and a Comprehensive Genetic Map with 1,291 Marker Loci for Chickpea (Cicer arietinum L.).  PLoS ONE, 6 (11).  pp. 1-12.  ISSN 1932-6203     
document_url: http://oar.icrisat.org/4132/1/PLoS__ONE_6_11_1-12_2011.pdf