Genetic diversity and population structure of core watermelon (<i>Citrullus lanatus</i>) genotypes using DArTseq-based SNPs

Yang, Xingping; Ren, Runsheng; Ray, Rumiana V.; Xu, Jianfei; Li, Pingfang; Zhang, Man; Guang, Liu; Yao, Xiefeng; Kilian, Andrzej

doi:10.1017/s1479262115000659

Cited by 34 publications

(36 citation statements)

References 30 publications

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“…A neighbor joining (NJ) tree constructed from Nei's standard distance (Fig. 1) shows that all seed lots were appropriately assigned into cultivar groups and is consistent with previous studies that used other marker systems (Huayu et al, 2016;Levi et al, 2004Levi et al, , 2009Yang et al, 2016;Zhang et al, 2012). The tree configuration is further supported by available pedigree information, which includes shared parentage of 'Congo', 'Crimson Sweet', and 'Charleston Gray' and no shared parentage of 'Sugar Baby'.…”

Section: Resultssupporting

confidence: 81%

“…The tree configuration is further supported by available pedigree information, which includes shared parentage of 'Congo', 'Crimson Sweet', and 'Charleston Gray' and no shared parentage of 'Sugar Baby'. These findings are consistent with the Reddy et al, (2015) study, which found that 'Crimson Sweet' and 'Georgia Rattlesnake' clustered together in a group of African ancestry, 'Congo' and 'Moon and Stars' clustered together in a group of European and American ancestry, and 'Sugar Baby' was placed in a second, genetically distinct group of European and American ancestry; as well as additional studies that describe 'Sugar Baby' as the least related among commercial cultivars (Reddy et al, 2015;Yang et al, 2016).…”

Section: Resultsmentioning

confidence: 99%

“…Important horticultural traits, such as days to germination, days to first flower, yield, and fruit quality were measured over two field seasons. Despite the low genetic diversity among watermelon cultivars worldwide, the American cultivars that are the focus of this study have been successfully differentiated using a variety of marker systems (Levi et al, 2001b(Levi et al, , 2009Yang et al, 2016). The current study used 32 SSR markers to estimate genetic diversity.…”

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confidence: 99%

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Inter- and Intracultivar Variation of Heirloom and Open-pollinated Watermelon Cultivars

Stone¹,

Boyhan²,

McGregor³

2019

horts

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Additional index words. genotypic, phenotypic, simple sequence repeat Abstract. Watermelon [Citrullus lanatus (Thunb.) Matsum. & Nakai] cultivars exhibit diverse phenotypic traits, yet are derived from a narrow genetic base. Heirloom cultivars, and to a lesser extent modern open-pollinated (OP) cultivars, are perceived to contain vital genetic variation that is critical for biodiversity conservation and crop improvement. The objective of this study was to characterize the diversity of six heirloom and open-pollinated watermelon cultivars that are popular among U.S. organic, directmarket, and home gardeners. An additional evaluation was conducted to determine whether significant phenotypic and genotypic variation existed among seed lots sourced from different commercial seed vendors. Important horticultural traits such as days to germination, days to first flower, yield, and fruit quality were measured over two field seasons. Genetic diversity was estimated using 32 simple sequence repeat (SSR) markers. Significant differences in horticultural traits among seed lots in both years were observed only in days to germination and first male flower, which may be a consequence of vendor differences in seed storage and quality control. Heirloom 'Moon and Stars' and modern OP 'Sugar Baby' were the most genetically distinct from the other cultivars and heirloom 'Georgia Rattlesnake' was determined to be highly related to the modern OP 'Charleston Gray'. The two heirloom cultivars were observed to have lower average gene diversity than the modern cultivars. Heirloom 'Moon and Stars' contained significant genetic variation among seed lots, yet heirloom 'Georgia Rattlesnake' contained none. These findings suggest that genetic variation can be more accurately attributed to pedigree and foundation seed maintenance practices than to the ''heirloom'' designation per se. The variation reported in this study can be used to inform conservation and breeding efforts.

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Section: Resultssupporting

confidence: 81%

Section: Resultsmentioning

confidence: 99%

mentioning

confidence: 99%

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Inter- and Intracultivar Variation of Heirloom and Open-pollinated Watermelon Cultivars

Stone¹,

Boyhan²,

McGregor³

2019

horts

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“…Dessert watermelon has a narrow genetic base (Levi et al, 2001;Hwang et al, 2011) probably due to many years of domestication and selection for desirable horticultural traits (Levi et al, 2001;Dane and Liu, 2007;Minsart et al, 2011). Therefore, continued search, identification and selection of unique genotypes is important for sustainable production of dessert watermelon (Sheng et al, 2012;Zhang et al, 2012;Yang et al, 2016).…”

Section: Discussionmentioning

confidence: 99%

“…Watermelon breeders regularly acquire new germplasm from diverse geographical regions for genetic improvement of the crop Yang et al, 2016). However, there is limited information on the magnitude of genetic variation of watermelon genetic resources (Hashizume et al, 2003;Weng et al, 2016).…”

Section: Introductionmentioning

confidence: 99%

Assessment of the genetic diversity of dessert watermelon (Citrullus lanatus var. lanatus) landrace collections of South Africa using SSR markers

Mashilo¹,

Shimelis²,

Odindo³

et al. 2017

Aust J Crop Sci

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Dessert watermelon landraces could provide useful germplasm sources for commercial watermelon breeding and/or conservation. This study assessed the genetic diversity present among dessert watermelon landrace collections of South Africa using simple sequence repeat (SSR) markers. Thirty one diverse dessert watermelon landraces were genotyped using 10 polymorphic SSR markers. A total of 94 alleles were amplified among the sampled population. The number of alleles ranged from 2 to 19 with a mean of 9.4 per locus. The number of effective alleles ranged from 1.07 to 9.94 with a mean of 4.61. Observed heterozygosity values ranged from 0.07 to 1.00 with a mean of 0.53. Expected heterozygosity, which measures gene diversity, was 0.66; which partitioned 75, 25 and 0% of the variation within individuals, among individuals and between populations, respectively. The mean gene fixation was 0.18 suggesting high levels of heterozygosity among the collections. The mean polymorphic information content (PIC) of the SSR loci was 0.65 suggesting their value in genetic diversity analysis of watermelon. The collections were allocated into three genetic groups using cluster analysis. The results revealed the presence of genetic diversity among South African dessert watermelon collections. Genetically unique landraces such as SWM-39, SWM-01, SWM-04, SWM-27, SWM-24, SWM-10 and SWM-36 from cluster I; SWM-35, SWM-21, SWM-02, SWM-34, SWM-07 and SWM-31 from cluster II; and SWM-22 and SWM-18 from cluster III were selected based on their high dissimilarity index. These are recommended for further phenotyping using horticultural attributes for effective breeding and strategic conservation.

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Conservation genetics of Notelaea lloydii (Oleaceae) in south‐eastern Queensland, Australia

Manawaduge,

Ryan,

Phillips

et al. 2024

Ecology and Evolution

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Habitat fragmentation can increase the chance of population bottlenecks and inbreeding, and may ultimately lead to reduced fitness and local extinction. Notelaea lloydii is a native olive species endemic to Australia and listed as vulnerable due to its restricted distribution. A recent molecular systematics study has revealed there might be some geographic structuring among N. lloydii populations. Therefore, we undertook a genome‐wide single nucleotide polymorphism (SNP) analysis to determine levels and patterns of genetic diversity, inbreeding and gene flow within and among N. lloydii populations in south‐eastern Queensland. Furthermore, as the reproductive phase of a plant's life history has a profound influence on genetic diversity, life history reproductive traits were also studied. Our SNP analysis revealed low genetic diversity, inbreeding and significant genetic structuring even among proximate populations. Results of a flower and fruit bagging experiment in two consecutive seasons revealed that N. lloydii produced many flowers but only a few fruits survived to maturity. There were no differences in bagged and un‐bagged flowering and fruiting rates, and therefore, we conclude that the high fruit abortion rate was probably due to inbreeding depression and/or suboptimal conditions, rather than pollinator availability and insect attack. Overall, results of this study indicate that the populations of N. lloydii are small, inbred and genetically isolated and represent unique management units that require local conservation management due to ongoing threats associated with urbanisation.

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Genetic diversity and population structure of core watermelon (Citrullus lanatus) genotypes using DArTseq-based SNPs

Cited by 34 publications

References 30 publications

Inter- and Intracultivar Variation of Heirloom and Open-pollinated Watermelon Cultivars

Inter- and Intracultivar Variation of Heirloom and Open-pollinated Watermelon Cultivars

Assessment of the genetic diversity of dessert watermelon (Citrullus lanatus var. lanatus) landrace collections of South Africa using SSR markers

Conservation genetics of Notelaea lloydii (Oleaceae) in south‐eastern Queensland, Australia

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