A high-density SSR genetic map constructed from a F2 population of Gossypium hirsutum and Gossypium darwinii

Most wild and semi-wild species of the genus Gossypium are exhibit photoperiod-sensitive flowering. The wild germplasm cotton is a valuable source of genes for genetic improvement of modern cotton cultivars. A bi-parental cotton population segregating for photoperiodic flowering was developed by crossing a photoperiod insensitive irradiation mutant line with its pre-mutagenesis photoperiodic wild-type G. darwinii Watt genotype. Individuals from the F2 and F3 generations were grown with their parental lines and F1 hybrid progeny in the long day and short night summer condition (natural day-length) of Uzbekistan to evaluate photoperiod sensitivity, i.e., flowering-time during the seasons 2008–2009. Through genotyping the individuals of this bi-parental population segregating for flowering-time, linkage maps were constructed using 212 simple-sequence repeat (SSR) and three cleaved amplified polymorphic sequence (CAPS) markers. Six QTLs directly associated with flowering-time and photoperiodic flowering were discovered in the F2 population, whereas eight QTLs were identified in the F3 population. Two QTLs controlling photoperiodic flowering and duration of flowering were common in both populations. In silico annotations of the flanking DNA sequences of mapped SSRs from sequenced cotton (G. hirsutum L.) genome database has identified several potential ‘candidate’ genes that are known to be associated with regulation of flowering characteristics of plants. The outcome of this research will expand our understanding of the genetic and molecular mechanisms of photoperiodic flowering. Identified markers should be useful for marker-assisted selection in cotton breeding to improve early flowering characteristics.

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“…darwinii ) [23]. It has genes that confer tolerance to drought, nematode resistance and high fiber quality [24]. In addition, G .…”

Section: Introductionmentioning

confidence: 99%

“…darwinii and G . hirsutum L. (Upland) cotton belong to the primary germplasm pool and can easily hybridize with each other [24]. Traits of wild G .…”

Section: Introductionmentioning

confidence: 99%

QTL mapping for flowering-time and photoperiod insensitivity of cotton Gossypium darwinii Watt

et al. 2017

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“…An inter-specific high-density linkage map of allotetraploid cotton has been constructed using the F 2 population of G. hirsutum and G. darwinii with 2763 markers associated with 26 linkage groups covering 4176.7 cM genome and displaying a few differences between A t and D t subgenomes [26]. Among 601 distorted SSR loci reported [27], a lower number of segregation distortion loci were located in the A t -subgenome than the D t -subgenome.…”

Section: Mapping For Fiber-related Traits In Cottonmentioning

confidence: 99%

Recent Developments in Fiber Genomics of Tetraploid Cotton Species

Ayubov¹,

Abdurakhmonov²,

Sripathi³

et al. 2018

Past, Present and Future Trends in Cotton Breeding

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Cotton (Gossypium spp.) produces naturally soft, single-celled trichomes as fiber on the seed coat supplying the main source of natural raw material for the textile industry. It is economically considered as one of the most leading cash crops in the world and evolutionarily very important as a model system for detailed scientific investigations. Cotton production is going through a big transition stage such as losing the market share in competition with the synthetic fibers, high popularity of Bt and herbicide resistance genes in cotton cultivars, and the recent shift of fiber demands to meet the standard fiber quality due to change of textile technologies to produce high superior quality of fibers in the global market. Recently, next-generation sequencing technologies through highthroughput sequencing at greatly reduced costs provided opportunities to sequence the diploid and tetraploid cotton genomes. With the availability of large volume of literatures on molecular mapping, new genomic resources, characterization of cotton genomes, discoveries of many novel genes, regulatory elements including small and microRNAs and new genetic tools such as gene silencing or gene editing technique for genome manipulation, this report attempted to provide the readers a comprehensive review on the recent advances of cotton fiber genomics research.

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“…G ossypium hirsutum , also called “Upland cotton”, represents 90% of global cotton fiber production [13], while Gossypium barbadense (also known as Pima) is valued for its extra-long staple fiber source, is domesticated in North-West South America, has its native origin in Egypt, and contributes around 8% of total world lint [9]. Wild Gossypium darwinii originated from Galapagos Island and, relative to G. barbadense, also has good fiber fineness characteristics and is a rich source of resistance to fusarium and verticillum wilts [14]. The d -genome Gossypium klotzschianum , having glabrous seed coverings, evolved through long-distance dispersals, is endemic to Galapagos Island, and is considered a New-World d -genome diploid along with G. raimondii .…”

Section: Introductionmentioning

confidence: 99%

“…The elite breeding programs cannot make robust inferences without using the unexploited standing genetic variation of archaic cultivars typically associated with wild accessions [14,21,22]. The characterization of genetic diversity between and within groups enables us to find heterozygous groups, understand population structures, and isolate a core set of lines for genetic analysis studies in cotton.…”

Section: Introductionmentioning

confidence: 99%

Assessment of Genetic Diversity, Population Structure, and Evolutionary Relationship of Uncharacterized Genes in a Novel Germplasm Collection of Diploid and Allotetraploid Gossypium Accessions Using EST and Genomic SSR Markers

Ditta

Zhou

Cai

et al. 2018

IJMS

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This study evaluated the genetic diversity and population structures in a novel cotton germplasm collection comprising 132 diploids, including Glossypium klotzschianum and allotetraploid cotton accessions, including Glossypium barbadense, Glossypium darwinii, Glossypium tomentosum, Glossypium ekmanianum, and Glossypium stephensii, from Santa Cruz, Isabella, San Cristobal, Hawaiian, Dominican Republic, and Wake Atoll islands. A total of 111 expressed sequence tag (EST) and genomic simple sequence repeat (gSSR) markers produced 382 polymorphic loci with an average of 3.44 polymorphic alleles per SSR marker. Polymorphism information content values counted 0.08 to 0.82 with an average of 0.56. Analysis of a genetic distance matrix revealed values of 0.003 to 0.53 with an average of 0.33 in the wild cotton collection. Phylogenetic analysis supported the subgroups identified by STRUCTURE and corresponds well with the results of principal coordinate analysis with a cumulative variation of 45.65%. A total of 123 unique alleles were observed among all accessions and 31 identified only in G. ekmanianum. Analysis of molecular variance revealed highly significant variation between the six groups identified by structure analysis with 49% of the total variation and 51% of the variation was due to diversity within the groups. The highest genetic differentiation among tetraploid populations was observed between accessions from the Hawaiian and Santa Cruz regions with a pairwise FST of 0.752 (p < 0.001). DUF819 containing an uncharacterized gene named yjcL linked to genomic markers has been found to be highly related to tryptophan-aspartic acid (W-D) repeats in a superfamily of genes. The RNA sequence expression data of the yjcL-linked gene Gh_A09G2500 was found to be upregulated under drought and salt stress conditions. The existence of genetic diversity, characterization of genes and variation in novel germplasm collection will be a landmark addition to the genetic study of cotton germplasm.

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A high-density SSR genetic map constructed from a F2 population of Gossypium hirsutum and Gossypium darwinii

Cited by 24 publications

References 34 publications

QTL mapping for flowering-time and photoperiod insensitivity of cotton Gossypium darwinii Watt

QTL mapping for flowering-time and photoperiod insensitivity of cotton Gossypium darwinii Watt

Recent Developments in Fiber Genomics of Tetraploid Cotton Species

Assessment of Genetic Diversity, Population Structure, and Evolutionary Relationship of Uncharacterized Genes in a Novel Germplasm Collection of Diploid and Allotetraploid Gossypium Accessions Using EST and Genomic SSR Markers

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