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Meta-analysis Of Polyploid Cotton QTL Shows Unequal Contributions Of Subgenomes To A Complex Network Of Genes And Gene Clusters Implicated In Lint Fiber Development

J. Rong, F. A. Feltus, V. N. Waghmare, Gary J. Pierce, P. Chee, X. Draye, Y. Saranga, R. J. Wright, T. Wilkins, O. L. May, C. W. Smith, J. Gannaway, J. Wendel, A. Paterson
Published 2007 · Biology, Medicine

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QTL mapping experiments yield heterogeneous results due to the use of different genotypes, environments, and sampling variation. Compilation of QTL mapping results yields a more complete picture of the genetic control of a trait and reveals patterns in organization of trait variation. A total of 432 QTL mapped in one diploid and 10 tetraploid interspecific cotton populations were aligned using a reference map and depicted in a CMap resource. Early demonstrations that genes from the non-fiber-producing diploid ancestor contribute to tetraploid lint fiber genetics gain further support from multiple populations and environments and advanced-generation studies detecting QTL of small phenotypic effect. Both tetraploid subgenomes contribute QTL at largely non-homeologous locations, suggesting divergent selection acting on many corresponding genes before and/or after polyploid formation. QTL correspondence across studies was only modest, suggesting that additional QTL for the target traits remain to be discovered. Crosses between closely-related genotypes differing by single-gene mutants yield profoundly different QTL landscapes, suggesting that fiber variation involves a complex network of interacting genes. Members of the lint fiber development network appear clustered, with cluster members showing heterogeneous phenotypic effects. Meta-analysis linked to synteny-based and expression-based information provides clues about specific genes and families involved in QTL networks.
This paper references
2005a). This is an example of homeologous loci for a fiber related trait detected in different experiments
Chee (2005)
Effect of chromosome substitutions from Gossypium barbadense L. 3–79 into G. hirsutum L
S. Saha (2004)
Mapping mendelian factors underlying quantitative traits using RFLP linkage maps.
E. Lander (1989)
A Two-Step Approach to Scale Up Green Plant Regeneration Through Somatic Embryogenesis from in vitro Cultured Immature Inflorescences of a Male Sterile Line and a Maintainer Line of Rice
N. A. Sahasrabudhe (2000)
Genomic dissection of genotype x environment interactions conferring adaptation of cotton to arid conditions.
Y. Saranga (2001)
Precision mapping of quantitative trait loci.
Z. Zeng (1994)
QTL analysis of leaf morphology in tetraploid Gossypium (cotton)
C. Jiang (2000)
Empirical threshold values for quantitative trait mapping.
G. Churchill (1994)
Molecular dissection of interspecific variation between Gossypium hirsutum and G. barbadense (cotton) by a backcross-self approach: II. Fiber fineness
X. Draye (2005)
Genetic mapping and QTL analysis of fiber-related traits in cotton (Gossypium)
M. Mei (2004)
Immature fiber mutant of Upland cotton.
R. J. Kohel (1990)
Cotton: Origin, History, Technology, and Production.
S. M. Brown (2000)
Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events
T. Tomita
2005a), a significant correlation
II Rong (2005)
TMS-22 (GH) x acc
Jiang (2000)
Fine mapping of quantitative trait loci using selected overlapping recombinant chromosomes, in an interspecies cross of tomato.
A. H. Paterson (1990)
Windows QTL Cartographer 2.5. Department of Statistics
S Wang (2005)
This finding implicates the Dt-genome (from the non-fiber-producing ancestor) in evolution of the transgressive fiber quality and yield of polyploid cottons relative to their diploid progenitors
Chee (2005)
Genetic mapping of a cross between Gossypium hirsutum (cotton) and the Hawaiian endemic, Gossypium tomentosum
V. N. Waghmare (2005)
CrimeStat: A spatial statistics program for the analysis of crime incident locations (v 2.0). Ned Levine & Associates
N Levine (2002)
The probability of duplicate gene preservation by subfunctionalization.
M. Lynch (2000)
A combined RFLP-SSR-AFLP map of tetraploid cotton based on a Gossypium hirsutum x Gossypium barbadense backcross population.
J. Lacape (2003)
QTL analysis of genotype × environment interactions affecting cotton fiber quality
A. Paterson (2002)
BioMercator: integrating genetic maps and QTL towards discovery of candidate genes
A. Arcade (2004)
Tamcot 2111(GH) X Pima S6
Paterson (2003)
Siv'on (GH) x F-177(GB
Jiang (1998)
Qualitative Genetics
R G Percy (1999)
The fossil record
P. Herendeen (1992)
Characteristics, development and mapping of Gossypium hirsutum derived EST-SSRs in allotetraploid cotton
Zhiguo Han (2005)
QTL locations on other maps that share some DNA markers with our reference map (Lacape et al
Shen (2003)
D-subgenome bias of Xcm resistance genes in tetraploid Gossypium (cotton) suggests that polyploid formation has created novel avenues for evolution.
R. J. Wright (1998)
A 3347-Locus Genetic Recombination Map of Sequence-Tagged Sites Reveals Features of Genome Organization, Transmission and Evolution of Cotton (Gossypium)
J. Rong (2004)
Studies of Mascarene Island birds: The fossil record
G. Cowles (1987)
A global assembly of cotton ESTs.
J. Udall (2006)
Comparative genomics of Gossypium and Arabidopsis: unraveling the consequences of both ancient and recent polyploidy.
J. Rong (2005)
fw2.2: a quantitative trait locus key to the evolution of tomato fruit size.
A. Frary (2000)
J. Heredity
Genetic mapping and comparative analysis of seven mutants related to seed fiber development in cotton
J. Rong (2005)
Crop Sci
Total ( Tetraploid
Rong (2005)
Tamcot 2111 (GH) 3 Pima S6
Paterson (2003)
New World tetraploid cottons contain Old World cytoplasm.
J. Wendel (1989)
1998), all others were detected in advanced backcross populations
Jiang (2005)
Qualitative Genetics, pp. 319– 360 in Cotton: Origin, History, Technology, and Production, edited by C
R. G. Percy (1999)
Genetic and physiological dissection of adaptations associated with cotton productivity under arid conditions
Y. Saranga (2004)
Genetic dissection of cotton physiological responses to arid conditions and their inter‐relationships with productivity
Yehoshua Saranga (2004)
United States Department of Agriculture National Research Initiative (02-01412 to A.H.P.), the National Science Foundation Plant Genome Research Program (DBI-9872630, DBI-0211700 to
Tests of six cotton (Gossypium hirsutum L.) mutants for association with aneuploids.
R. J. Kohel (2002)
Subfunctionalization of duplicated genes as a transition state to neofunctionalization
Shruti Rastogi (2005)
Rate variation among nuclear genes and the age of polyploidy in Gossypium.
D. Senchina (2003)
fiber length (Chee et al. 2005b), and mass of seed cotton (log transformed
Paterson (2003)
Linkage map construction and mapping QTL for cotton fibre quality using SRAP, SSR and RAPD
Z. Lin (2005)
Resolution of quantitative traits into Mendelian factors by using a complete linkage map of restriction fragment length polymorphisms
A. Paterson (1988)
Fast identification and statistical evaluation of segmental homologies in comparative maps
P. P. Calabrese (2003)
Molecular dissection of interspecific variation between Gossypium hirsutum and Gossypium barbadense (cotton) by a backcross-self approach: I. Fiber elongation
P. Chee (2005)
Duplicated genes evolve independently after polyploid formation in cotton.
R. Cronn (1999)
Breeding Transformed Cotton Expressing Enhanced Fiber Strength
O. L. May (2001)
Molecular mapping of genes affecting pubescence of cotton
R. J. Wright (1999)
QTL Analysis of Cotton Fiber Quality Using Multiple Gossypium hirsutum × Gossypium barbadense Backcross Generations
Jean-Marc Lacape (2005)
The fossil record 2
M. Benton (1993)
CrimeStat: A spatial statistics program for the analysis of crime incident locations (v 2.0)
N. Levine (2002)
Molecular dissection of phenotypic variation between Gossypium hirsutum and Gossypium barbadense (cotton) by a backcross-self approach: III. Fiber length
P. Chee (2005)
Polyploid formation created unique avenues for response to selection in Gossypium (cotton).
C. Jiang (1998)
Molecular mapping of QTLs for fiber qualities in three diverse lines in Upland cotton using SSR markers
Xinlian Shen (2004)
The region harboring these QTL showed synteny (identified by both CrimestatII and FISH) with Arabidopsis duplications a03 and a21. Gene At4g18780 in a21 is CelA1 (E 1⁄4 0) and two Arabidopsis genes
Chee (2005)
BREEDING AND GENETICS Effect of Chromosome Substitutions from Gossypium barbadense L. 3-79 into G. hirsutum L. TM-1 on Agronomic and Fiber Traits
S. Saha (2004)

This paper is referenced by
Genome-Wide SNP Linkage Mapping and QTL Analysis for Fiber Quality and Yield Traits in the Upland Cotton Recombinant Inbred Lines Population
C. Li (2016)
DNA Sequence Evolution and Rare Homoeologous Conversion in Tetraploid Cotton
J. Page (2016)
Bioinformatics for the Comparative Genomic Analysis of the Cotton (Gossypium) Polyploid Complex
J. Page (2015)
QTL Mapping: Methodology and Applications in Cereal Breeding
P. Gupta (2013)
Efficacy of qFL‐chr1, a Quantitative Trait Locus for Fiber Length in Cotton (Gossypium spp.)
Xinlian Shen (2011)
Cotton QTLdb: a cotton QTL database for QTL analysis, visualization, and comparison between Gossypium hirsutum and G. hirsutum × G. barbadense populations
Joseph I. Said (2015)
A meta-analysis of seed protein concentration QTL in soybean
Qi Zhaoming (2011)
Genome-wide association study reveals the genetic basis of fiber quality traits in upland cotton (Gossypium hirsutum L.)
W. Liu (2020)
Identification of genes that were differentially expressed and associated with fiber yield and quality using cDNA-AFLP and a backcross inbred line population
M. Pang (2011)
Genetic dissection of chromosome substitution lines of cotton to discover novel Gossypium barbadense L. alleles for improvement of agronomic traits
S. Saha (2009)
Meta-Analysis of Quantitative Trait Association and Mapping Studies using Parametric and Non-Parametric Models
Xiao-Lin Wu (2013)
cDNA-AFLP-based genetical genomics in cotton fibers
M. Claverie (2011)
Effects of exotic genotypes and genetic backgrounds on fiber quality and plant architectural traits in Upland cotton (Gossypium hirsutum L.)
Jeevan Adhikari (2015)
Distribution in genome of Quantitative trait loci ( QTL ) for yield and yield-related traits in common wheat ( Triticum aestivum L . )
L. Zhang (2010)
Construction of a potato consensus map and QTL meta-analysis offer new insights into the genetic architecture of late blight resistance and plant maturity traits
Sarah Danan (2010)
QTL Mapping for Fiber Quality and Yield Traits Based on Introgression Lines Derived from Gossypium hirsutum × G. tomentosum
Ayaz Ali Keerio (2018)
Genetic analysis of a novel fiber developmental mutant ligon-lintless-Sd (LiSd) in Gossypium hirsutum L.
Y. Wang (2019)
QTLs conferring FOV 7 resistance detected by linkage and association mapping in Upland cotton
H. Mei (2014)
A meta-analysis of seed protein concentration QTL in soybean
Zhao-mingQi (2011)
Detection and validation of one stable fiber strength QTL on c9 in tetraploid cotton
X. Yang (2016)
Wheat syntenome unveils new evidences of contrasted evolutionary plasticity between paleo- and neoduplicated subgenomes.
C. Pont (2013)
Genetic evaluation of exotic chromatins from two obsolete interspecific introgression lines of Upland cotton
Pawan Kumar (2012)
Meta-analysis of QTL associated with Fusarium head blight resistance in wheat.
S. Liu (2009)
Past, Present and Future Trends in Cotton Breeding
W. Mahjoub (2018)
Identification of cotton fiber quality quantitative trait loci using intraspecific crosses derived from two near-isogenic lines differing in fiber bundle strength
M. N. Islam (2014)
Omics Approaches to Improving Fiber Qualities in Cotton
T. Zhang (2013)
Review Article Marker-assisted Breeding as Next-generation Strategy for Genetic Improvement of Productivity and Quality: Can It Be Realized in Cotton? 1. Rationale for Genetic Improvement of Cotton Fiber
N. Manikanda Boopathi ()
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Chuanfu An (2008)
Gene Expression Studies Reveal the Role of Major Genes Regulate the High Quality of Egyptian Cotton Fibers
A. S. Ibrahim (2018)
Construction of genetic linkage maps and QTL mapping for X-disease resistance in tetraploid chokecherry (Prunus virginiana L.) using SSR and AFLP markers
H. Wang (2014)
QTL analysis of agronomic, fiber quality, and abiotic stress tolerance traits in a recombinant inbred population of pima cotton
A. Abdelraheem (2020)
Meta-analysis of cotton fiber quality QTLs across diverse environments in a Gossypium hirsutum x G. barbadense RIL population
Jean-Marc Lacape (2009)
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