A linkage map of chickpea (Cicer arietinum L.) based on population from ILC3279×ILC588 crosses: Location of genes for time to flowering, seed size and plant height

Karami, Ezzat; Talebi, Reza; Kharkesh, Mehrab; Saïdi, A.

doi:10.2298/gensr1501253k

Cited by 17 publications

(12 citation statements)

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“…To ascertain the robustness and novelty of the identified PH QTLs, the major genomic regions underlying six robust PH QTLs were compared/correlated with that of previous QTL mapping studies based on correspondence of physical positions of SNPs covering (flanked/linked) the target QTL intervals3758. None of these six QTLs were found to be congruent with previous QTL mapping studies involving diverse intra- and inter-specific mapping populations of chickpea.…”

Section: Discussionmentioning

confidence: 89%

“…Considering the added-advantages of QTL and association mapping in quantitative dissection of complex traits, a number of genes underlying QTLs associated with plant height that rely on these approaches, have been identified in crop plants, including legumes 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 . Similar major efforts have been made in the past few years towards molecular mapping of low-resolution QTLs governing plant height on multiple intra- as well as inter-specific genetic linkage maps of chickpea 6 29 34 37 55 56 57 58 . However, none of these plant height QTLs could essentially be validated hitherto in diverse genetic backgrounds of chickpea accessions across multiple geographical locations (years).…”

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confidence: 89%

“…Similar major efforts have been made in the past few years towards molecular mapping of low-resolution QTLs governing plant height on multiple intra- as well as inter-specific genetic linkage maps of chickpea629343755565758. However, none of these plant height QTLs could essentially be validated hitherto in diverse genetic backgrounds of chickpea accessions across multiple geographical locations (years).…”

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confidence: 99%

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Identification of candidate genes and natural allelic variants for QTLs governing plant height in chickpea

Kujur

Upadhyaya

Bajaj

et al. 2016

Sci Rep

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In the present study, molecular mapping of high-resolution plant height QTLs was performed by integrating 3625 desi genome-derived GBS (genotyping-by-sequencing)-SNPs on an ultra-high resolution intra-specific chickpea genetic linkage map (dwarf/semi-dwarf desi cv. ICC12299 x tall kabuli cv. ICC8261). The identified six major genomic regions harboring six robust QTLs (11.5–21.3 PVE), associated with plant height, were mapped within <0.5 cM average marker intervals on six chromosomes. Five SNPs-containing genes tightly linked to the five plant height QTLs, were validated based upon their high potential for target trait association (12.9–20.8 PVE) in 65 desi and kabuli chickpea accessions. The vegetative tissue-specific expression, including higher differential up-regulation (>5-fold) of five genes especially in shoot, young leaf, shoot apical meristem of tall mapping parental accession (ICC8261) as compared to that of dwarf/semi-dwarf parent (ICC12299) was apparent. Overall, combining high-resolution QTL mapping with genetic association analysis and differential expression profiling, delineated natural allelic variants in five candidate genes (encoding cytochrome-c-biosynthesis protein, malic oxidoreductase, NADH dehydrogenase iron-sulfur protein, expressed protein and bZIP transcription factor) regulating plant height in chickpea. These molecular tags have potential to dissect complex plant height trait and accelerate marker-assisted genetic enhancement for developing cultivars with desirable plant height ideotypes in chickpea.

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Section: Discussionmentioning

confidence: 89%

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confidence: 89%

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Identification of candidate genes and natural allelic variants for QTLs governing plant height in chickpea

Kujur

Upadhyaya

Bajaj

et al. 2016

Sci Rep

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“…For chickpea seed size, many studies have reported QTL by using 100-seed weight (Cobos et al, 2007;Gowda et al, 2011;Karami et al, 2015). While none of these studies reported QTL for seed size using seed volume, all three reported QTL for seed size on LG 4, where the SEV Ca-4 seed volume QTL resides.…”

Section: Traitmentioning

confidence: 99%

Quantitative Trait Loci for Cold Tolerance in Chickpea

et al. 2019

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Fall‐sown chickpea (Cicer arietinum L.) yields are often double those of spring‐sown chickpea in regions with Mediterranean climates that have mild winters. However, winter kill can limit the productivity of fall‐sown chickpea. Developing cold‐tolerant chickpea would allow the expansion of the current geographic range where chickpea is grown and also improve productivity. The objective of this study was to identify the quantitative trait loci (QTL) associated with cold tolerance in chickpea. An interspecific recombinant inbred line population of 129 lines derived from a cross between ICC 4958, a cold‐sensitive desi type (C. arietinum), and PI 489777, a cold‐tolerant wild relative (C. reticulatum Ladiz), was used in this study. The population was phenotyped for cold tolerance in the field over four field seasons (September 2011–March 2015) and under controlled conditions two times. The population was genotyped using genotyping‐by‐sequencing, and an interspecific genetic linkage map consisting of 747 single nucleotide polymorphism (SNP) markers, spanning a distance of 393.7 cM, was developed. Three significant QTL were found on linkage groups (LGs) 1B, 3, and 8. The QTL on LGs 3 and 8 were consistently detected in six environments with logarithm of odds score ranges of 5.16 to 15.11 and 5.68 to 23.96, respectively. The QTL CT Ca‐3.1 explained 7.15 to 34.6% of the phenotypic variance in all environments, whereas QTL CT Ca‐8.1 explained 11.5 to 48.4%. The QTL‐associated SNP markers may become useful for breeding with further fine mapping for increasing cold tolerance in domestic chickpea.

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“…Using an interspecific cross between Hadas (C. arietinum) with Cr 205 (C. reticulatum), Abbo et al (2005) also identified a significant QTL on the same LG4. Major QTLs for seed size on LG 4 were also identified using different intra-and interspecific crosses Radhika et al 2007;Hossain et al 2010b;Jamalabadi et al 2013;Karami et al 2015). Additionally, minor QTLs on LG1 (Radhika et al 2007;Hossain et al 2010b), LG2 , and LG 8 were also reported (see Chap.…”

Section: Seed Shape and Sizementioning

confidence: 90%

The Chickpea Genome

Varshney¹,

Thudi²,

Muehlbauer³

2017

Compendium of Plant Genomes

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Whole-genome sequencing is at the cutting edge of life sciences in the new millennium. Since the first genome sequencing of the model plant Arabidopsis thaliana in 2000, whole genomes of about 70 plant species have been sequenced and genome sequences of several other plants are in the pipeline. Research publications on these genome initiatives are scattered on dedicated web sites and in journals with all too brief descriptions. The individual volumes elucidate the background history of the national and international genome initiatives; public and private partners involved; strategies and genomic resources and tools utilized; enumeration on the sequences and their assembly; repetitive sequences; gene annotation and genome duplication. In addition, synteny with other sequences, comparison of gene families and most importantly potential of the genome sequence information for gene pool characterization and genetic improvement of crop plants are described. ISBN 978-3-319-66115-5 ISBN 978-3-319-66117-9 (eBook) DOI 10.1007/978-3-319-66117-9 Library of Congress Control Number: 2017953820 © Springer International Publishing AG 2017 This work is subject to copyright. All rights are reserved by the Publisher, whether the whole or part of the material is concerned, specifically the rights of translation, reprinting, reuse of illustrations, recitation, broadcasting, reproduction on microfilms or in any other physical way, and transmission or information storage and retrieval, electronic adaptation, computer software, or by similar or dissimilar methodology now known or hereafter developed. The use of general descriptive names, registered names, trademarks, service marks, etc. in this publication does not imply, even in the absence of a specific statement, that such names are exempt from the relevant protective laws and regulations and therefore free for general use. The publisher, the authors and the editors are safe to assume that the advice and information in this book are believed to be true and accurate at the date of publication. Neither the publisher nor the authors or the editors give a warranty, express or implied, with respect to the material contained herein or for any errors or omissions that may have been made. The publisher remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.Printed on acid-free paper This Springer imprint is published by Springer Nature The registered company is Springer International Publishing AG The registered company address is: Gewerbestrasse 11, 6330 Cham, Switzerland This book series is dedicated to my wife Phullara, and our children Sourav, and DevleenaChittaranjan Kole Preface to the SeriesGenome sequencing has emerged as the leading discipline in the plant sciences coinciding with the start of the new century. For much of the twentieth century, plant geneticists were only successful in delineating putative chromosomal location, function, and changes in genes indirectly through the use of a number of 'markers' physically linked...

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A linkage map of chickpea (Cicer arietinum L.) based on population from ILC3279×ILC588 crosses: Location of genes for time to flowering, seed size and plant height

Cited by 17 publications

References 21 publications

Identification of candidate genes and natural allelic variants for QTLs governing plant height in chickpea

Identification of candidate genes and natural allelic variants for QTLs governing plant height in chickpea

Quantitative Trait Loci for Cold Tolerance in Chickpea

The Chickpea Genome

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