A genetic bottleneck in the ’evolution under domestication’ of upland cotton Gossypium hirsutum L. examined using DNA fingerprinting

Iqbal, Muhammad Javed; Reddy, O.U.K.; El-Zik, K. M.; Pepper, Alan E.

doi:10.1007/pl00002908

Cited by 166 publications

(134 citation statements)

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“…After the revolution in textile industry, G. hirsutum and G. barbadense replaced major cultivated area under diploid cultivated species especially in Asia (Iqbal et al 2001;Rahman et al 2008). G. hirsutum is predominantly cultivated on *90 % of the total cotton area whereas; limited area is under cultivation of G. barbadense, known for producing high quality lint fiber (Abdalla et al 2001;Rahman et al 2012).…”

Section: Introductionmentioning

confidence: 99%

Pros and cons of using genomic SSRs and EST-SSRs for resolving phylogeny of the genus Gossypium

2013

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The genus Gossypium is comprised of 50 diverse cotton species representing eight different genomes (A through G and K), however, phylogenetic relationship using various DNA marker types such as RAPD and SSRs was determined on limited number of cotton species. In this report, we have demonstrated the application of genomic SSRs (gSSRs) and EST-SSRs, and after combining both the data sets, for resolving the phylogenies of 36 cotton species including seven races. Out of the 100 primer pairs surveyed (50 for gSSRs and 50 for ESTSSRs), 75 produced scorable amplification products in all species. Out of these, 73 were found to be polymorphic and amplified 135 alleles ranging from 1 to 5 alleles per SSR marker (average 2.87 alleles per marker). The gSSRs amplified higher number of alleles (72) compared to the EST-SSRs (63). In total 22 highly informative SSRs with PIC values C0.5 were identified. Genomic SSRs containing di-while EST-SSRs containing tri-nucleotide repeats exhibited high polymorphism compared to the other nucleotide repeats containing gSSRs/EST-SSRs. Number of tandem repeats and polymorphism were positively correlated. Neither the type of chromosome nor the location of the SSRs showed association with the polymorphism. Gossypium herbaceum var. africanum (Watt) Hutch. ex and Ghose and Gossypium robinsonii F. Muell. were found the most genetically diverse, while among races of Gossypium hirsutum L. ''yucatanense'' and G. hirsutum ''punctatum'' were found genetically diverse. Of the three data sets, clustering analysis based on EST-SSRs and combined data sets, revealed parallel results reported in earlier studies. This study further confirmed that Gossypium darwinii Watt has close relationship with Gossypium barbadense L. Moreover, Gossypium raimondii Ulbr. and G. herbaceum/Gossypium arboreum L. are close living relatives of the ancestor allotetraploid species. Our studies suggest that for resolving phylogenetic relationship among the various plant species EST-SSRs could be a better choice. This information can be instrumental in transferring novel alleles or loci from the wild species into the cultivated cotton species which would set a stage for cultivating genetically diverse cultivars-a way to achieve sustainable cotton production in changing climate.

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Section: Introductionmentioning

confidence: 99%

Pros and cons of using genomic SSRs and EST-SSRs for resolving phylogeny of the genus Gossypium

2013

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“…The other reason is the lack of innovative tools to mobilize the useful genetic variations from diverse exotic cotton species of Gossypium genus into the breeding cultivars. All these factors together led to the genetic bottleneck in evolution [27]. Understanding about the extent of genetic diversity and relationships among breeding materials could pave the way for precise parental selection and germplasm organization for cotton improvement breeding programs [28][29][30][31][32][33][34].…”

Section: Genetic Diversity In Cottonmentioning

confidence: 99%

“…Over the last two decades, multiple genomic tools have been utilized for exploring the cotton genome. Different types of DNA markers such as restriction fragment length polymorphism (RFLP) [39,40], randomly amplified polymorphic DNA (RAPD) [41][42][43][44][45][46][47][48], amplified fragment length polymorphism (AFLP) [27,49], simple sequence repeat (SSR) or microsatellites [37,50,51], single nucleotide polymorphism (SNPs) [52][53][54][55], physical maps, genetic maps, mapped genes and QTLs, microarrays, gene expression profiling, BAC and BIBAC libraries, QTL fine mapping, resistance gene analogs (RGA), genome sequencing, non-fiber and non-ovule EST development, gene expression profiling, and association studies for various traits have been extensively used for understanding the cotton genome. Finally, the genome sequence information of G. hirsutum L. and its progenitor species will considerably expedite the cotton genomic research toward identifying new genes conferring various traits of interest, and would also help in identifying DNA markers linked with traits which can be used in MAS.…”

Section: Genomic Studies In Cottonmentioning

confidence: 99%

Genetic Mapping in Cotton

Bardak¹,

Hayat²,

Erdoğan³

et al. 2018

Past, Present and Future Trends in Cotton Breeding

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The genus Gossypium provides natural fiber for textile industry worldwide. Genetic improvement in cotton for traits of interest is not up to mark due to scarcity of adequate information about fiber production and quality. Use of DNA markers for overcoming the issues of selection associated with complex traits is the ultimate choice which may lead to initiate breeding by design. Numerous marker-trait associations have been identified for economical traits using linkage analysis in cotton. Currently there is need for developing high-density genetic maps using next-generation sequencing approaches together with genome-wide association studies (GWAS). Efforts have been started in this direction and several QTLs including fiber quality, yield traits, plant architecture, stomatal conductance and verticillium wilt resistance were identified. This chapter narrates genetic diversity, QTL mapping, association mapping and QTLs related to fiber quality traits. The incorporation of various genomic approaches and previously described marker strategies will pave the way for increase in fiber production.

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“…Várias são as culturas que demonstram perda de diversidade genética devido a sucessivos gargalos de garrafa, tais como café (Coffea arabica) (LÓPEZ-GARTNER et al, 2009), algodão (Gossypium hirsutum) (IQBAL et al, 2001), tomateiro (Solanum lycopersicum) (SAN-SAN-YI et al, 2008), grão-de-bico (Cicer arietinum) (ABBO et al, 2003), entre outras (Tabela 1). Tal processo também foi importante na domesticação de espécies arbóreas como a teca (Tectona grandis) (VARGHESE et al, 2006) e de plantas daninhas que coevoluiram com as plantas cultivadas, como é o caso de Lythrum salicaria, a qual foi introduzida nos EUA a partir da Europa (ECKERT et al, 1996).…”

Section: Deriva Genéticaunclassified