Genetic diversity of Cucurbita rootstock germplasm as assessed using simple sequence repeat markers

Kong, Qiusheng; Chen, Jiaolong; Liu, Yong; Ma, Yihua; Liu, Peng; Wu, Shengyun; Huang, Yuan; Bie, Zhilong

doi:10.1016/j.scienta.2014.06.009

Cited by 33 publications

(24 citation statements)

References 23 publications

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“…pepo : A = 3.43–3.8 [Gong et al., , ; Formisano et al., ; Enríquez et al., ; Castellanos‐Morales et al., ]; C. argyrosperma ssp. argyrosperma : A = 2.7 [Sánchez‐de la Vega et al., ]; a hybrid Cucurbita rootstock [ C. moschata × C. maxima ]: A = 2.2 [Kong et al., ]). Total genetic variation of C. moschata ( H E = 0.395) was similar to values reported for sister taxa C. argyrosperma ssp.…”

Section: Discussionmentioning

confidence: 99%

“…sororia ( H E = 0.41 and H E = 0.43, respectively; Sánchez‐de la Vega et al., ), but slightly lower than values reported for other annual plants in microsatellite studies (i.e., H E = 0.46; Nybom, ) and for other squash crops, for instance C. pepo ssp. pepo ( H E = 0.500–0.572; Enríquez et al., ; Castellanos‐Morales et al., ), C. maxima ( H E = 0.56; Kaźmińska et al., ), and hybrid Cucurbita rootstocks ( H E = 0.46; Kong et al., ).…”

Section: Discussionmentioning

confidence: 99%

“…Many studies have assessed the levels of genetic diversity in germplasm collections of domesticated Cucurbita species, mainly in C. pepo (Baranek et al, 2000;Ferriol et al, 2003aFerriol et al, , b, 2004aParis et al, 2003;Cerón et al, 2010;Wu et al, 2011;Formisano et al, 2012;Gong et al, 2012Gong et al, , 2013Inan et al, 2012;Kong et al, 2014;Balvino-Olvera et al, 2017;Kaźmińska et al, 2017;Enríquez et al, 2018;Sánchez-de la Vega et al, 2018;Castellanos-Morales et al, 2019). Few studies have analyzed genetic variation in C. moschata, and these included only a few landraces from Mexico (Montes-Hernández and Eguiarte, 2002;Barboza et al, 2012).…”

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confidence: 99%

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Phylogeographic and population genetic analyses ofCucurbita moschatareveal divergence of two mitochondrial lineages linked to an elevational gradient

Hernández-Rosales

Castellanos‐Morales

Vega

et al. 2020

American J of Botany

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Premise Domestication usually involves local adaptation to environmental conditions. Cucurbita species are a promising model for studying these processes. Cucurbita moschata is the third major crop in the genus because of its economic value and because it displays high landrace diversity, but research about its genetic diversity, population structure, and phylogeography is limited. We aimed at understanding how geography and elevation shape the distribution of genetic diversity in C. moschata landraces in Mexico. Methods We sampled fruits from 24 localities throughout Mexico. We assessed 11 nuclear microsatellite loci, one mtDNA region, and three cpDNA regions but found no variation in cpDNA. We explored genetic structure with cluster analysis, and phylogeographic relationships with haplotype network analysis. Results Mitochondrial genetic diversity was high, and nuclear genetic differentiation among localities was intermediate compared to other domesticated Cucurbita. We found high levels of inbreeding. We recovered two mitochondrial lineages: highland (associated with the Trans‐Mexican Volcanic Belt) and lowland. Nuclear microsatellites show that localities from the Yucatan Peninsula constitute a well‐differentiated group. Conclusions Mexico is an area of high diversity for C. moschata, and these landraces represent important plant genetic resources. In Mexico this species is characterized by divergence processes linked to an elevational gradient, which could be related to adaptation and may be of value for applications in agriculture. The Isthmus of Tehuantepec may be a partial barrier to gene flow. Morphological variation, agricultural management, and cultural differences may be related to this pattern of genetic structure, but further studies are needed.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

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confidence: 99%

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Phylogeographic and population genetic analyses ofCucurbita moschatareveal divergence of two mitochondrial lineages linked to an elevational gradient

Hernández-Rosales

Castellanos‐Morales

Vega

et al. 2020

American J of Botany

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“…The power of molecular markers in assessing the genetic diversity and helping the management of plant genetic resources (e.g., development of a core collection) has been well demonstrated (Kong et al, 2014). From a plant breeding perspective, molecular analysis can help to define the lineage relationships among genetic materials and to eliminate the phenomenon of homonyms as well as aiding identification of breeding lines carrying genes of interest (Hu et al, 2014).…”

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Genetic Diversity, Population Structure, and Formation of a Core Collection of 1197 Citrullus Accessions

Zhang¹,

Fan²,

Guo³

et al. 2016

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Watermelon belongs to the genus Citrullus. There have been continuing interests in breeding of watermelon for economic benefits, but information on the scope and utilization of genetic variations in Citrullus is still limited. The present study was conducted in 2012–13, to evaluate the genetic diversity and population structure of the 1197 line watermelon collection maintained by the Beijing Vegetable Research Center (BVRC), which belongs to seven Citrullus species including Citrullus naudinianus, Citrullus colocynthis, Citrullus rehmii, Citrullus ecirrhosus, Citrullus amarus, Citrullus mucosospermus, and Cirullus lanatus subsp. vulgaris. Twenty-three highly informative microsatellite markers evenly distributed in the watermelon genome were used to assess genetic diversity in this collection. The markers detected on an average of 6.05 alleles per locus with the average value of polymorphism information content (PIC) at 0.49. A high level of gene diversity [Nei’s gene diversity index (Nei) = 0.56] and a low observed heterozygosity (Ho = 0.10) were revealed within the collection. Structure analysis grouped the 1197 accessions into two main populations (Pop I and Pop II) and an admixture group. Pop I contained 450 accessions from C. lanatus subsp. vulgaris (446) and C. mucosospermus (4). Pop II comprised 465 accessions, 379 of which belonged to C. lanatus subsp. vulgaris and 86 to C. naudinianus (3), C. ecirrhosus (2), C. rehmii (2), C. colocynthis (11), C. amarus (58), and C. mucosospermus (10). The remaining 282 accessions were classified as an admixture group. The two main populations were further subdivided into four subgroups. The groupings were consistent with the estimation of F statistics (Fst) and Nei’s genetic distances in collections. We confirmed the distinct genetic backgrounds between American and East Asian ecotypes. Subsequently, we defined a core set consisting of 130 accessions including 47 from Pop I, 68 from Pop II, and 15 from the Admixture group. This core set was able to capture all 133 alleles detected by 23 simple sequence repeats (SSRs) in 1197 accessions. These results will facilitate efficient use of genetic variations in Citrullus in watermelon breeding and help optimization of accessions in genomewide association studies.

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“…In the study of Kong et al (2014), 80 SSR markers were used to determine the genetic diversity and relationships of 35 Cucurbita rootstock accessions. And the result showed that some of polymorphic SSR markers provided comprehensive assessment on the genetic variations of the Cucurbita rootstock germplasm.…”

Section: Discussionmentioning

confidence: 99%

Assessment of genetic diversity of cucumber cultivars in China based on simple sequence repeats and fruit traits

Yang

et al. 2015

Genet. Mol. Res.

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ABSTRACT. The cucumber (Cucumis sativus L.) is an important crop grown worldwide. In this study, the genetic diversity of 42 cucumber cultivars in China was analyzed using 51 pairs of simple sequence repeat (SSR) primers. These primers identified 129 polymorphic loci, 95.6% of which were polymorphic. The mean effective number of alleles, mean Nei's gene diversity, and mean Shannon's information index were 0.36, 0.16, and 0.21, respectively. A cluster analysis demonstrated that the 42 cultivars could be divided into three groups, a result that was largely consistent with those of a principal component analysis (PCA). The PCA indicated that the three groups displayed significant variation in fruit traits. The cultivars of group 1 tended to have longer fruits (>30 cm), longer fruit ends (>4 cm), larger fruit diameters (>5 cm), a sharp strigose fruit spine, and the same fruit end shape. The basal color of the fruit in group 2 was dark green. Group 3 cultivars have no wax or mottling on the fruit surface. Our study 19029 Genetic diversity in the cucumber ©FUNPEC-RP www.funpecrp.com.br Genetics and Molecular Research 14 (4): 19028-19039 (2015) demonstrates the value of our SSR primers for assessing genetic diversity in cucumber.

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Genetic diversity of Cucurbita rootstock germplasm as assessed using simple sequence repeat markers

Cited by 33 publications

References 23 publications

Phylogeographic and population genetic analyses ofCucurbita moschatareveal divergence of two mitochondrial lineages linked to an elevational gradient

Phylogeographic and population genetic analyses ofCucurbita moschatareveal divergence of two mitochondrial lineages linked to an elevational gradient

Genetic Diversity, Population Structure, and Formation of a Core Collection of 1197 Citrullus Accessions

Assessment of genetic diversity of cucumber cultivars in China based on simple sequence repeats and fruit traits

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