eprintid: 11588
rev_number: 7
eprint_status: archive
userid: 3170
dir: disk0/00/01/15/88
datestamp: 2020-09-04 17:01:05
lastmod: 2020-09-04 17:01:05
status_changed: 2020-09-04 17:01:05
type: article
metadata_visibility: show
creators_name: Jaganathan, D
creators_name: Bohra, A
creators_name: Thudi, M
creators_name: Varshney, R K
creators_gender: Female
icrisatcreators_name: Jaganathan, D
icrisatcreators_name: Thudi, M
icrisatcreators_name: Varshney, R K
affiliation: ICRISAT (Patancheru)
affiliation: Centre for Plant Molecular Biology and Biotechnology, Tamil Nadu Agricultural University (TNAU), Coimbatore
affiliation: Crop Improvement Division, ICAR-Indian Institute of Pulses, Research (IIPR), Kanpur
country: India
title: Fine mapping and gene cloning in the post-NGS era: advances and prospects
ispublished: pub
subjects: PLB1
subjects: s2.13
divisions: CRPS3
crps: CG1
full_text_status: public
keywords: Genetics, Genomics, Breeding
note: The authors are thankful to Australia–India Strategic
Research Fund (AISRF) project funded by the Department of
Science and Technology (DST) and Tropical Legumes I (TLI) project
funded by Bill and Melinda Gates Foundation (BMGF) through
CGIAR-Generation Challenge Program (GCP; http://www.gener ation
cp.org/). The Department of Biotechnology (DBT) is greatly acknowledged
for providing the grant and fellowship to the first author. This
work has been carried out as part of the CGIAR Research Program
on Grain Legumes and Dryland Cereals. ICRISAT is a member of the
CGIAR Consortium.
abstract: Improvement in traits of agronomic importance is the top breeding priority of crop improvement programs. Majority of
these agronomic traits show complex quantitative inheritance. Identification of quantitative trait loci (QTLs) followed by
fine mapping QTLs and cloning of candidate genes/QTLs is central to trait analysis. Advances in genomic technologies
revolutionized our understanding of genetics of complex traits, and genomic regions associated with traits were employed in
marker-assisted breeding or cloning of QTLs/genes. Next-generation sequencing (NGS) technologies have enabled genomewide
methodologies for the development of ultra-high-density genetic linkage maps in different crops, thus allowing placement
of candidate loci within few kbs in genomes. In this review, we compare the marker systems used for fine mapping and
QTL cloning in the pre- and post-NGS era. We then discuss how different NGS platforms in combination with advanced
experimental designs have improved trait analysis and fine mapping. We opine that efficient genotyping/sequencing assays
may circumvent the need for cumbersome procedures that were earlier used for fine mapping. A deeper understanding of
the trait architectures of agricultural significance will be crucial to accelerate crop improvement.
date: 2020-02
date_type: published
publication: Theoretical and Applied Genetics (TSI)
volume: 133
number: 5
publisher: Springer
pagerange: 1791-1810
id_number: doi:10.1007/s00122-020-03560-w
refereed: TRUE
issn: 0040-5752
official_url: https://doi.org/10.1007/s00122-020-03560-w
related_url_url: https://scholar.google.com/scholar?hl=en&as_sdt=0%2C5&q=10.1007%2Fs00122-020-03560-w&btnG=
related_url_type: pub
citation:   Jaganathan, D and Bohra, A and Thudi, M and Varshney, R K  (2020) Fine mapping and gene cloning in the post-NGS era: advances and prospects.  Theoretical and Applied Genetics (TSI), 133 (5).  pp. 1791-1810.  ISSN 0040-5752     
document_url: http://oar.icrisat.org/11588/1/s00122-020-03560-w.pdf