Genetic diversity analysis for narrow-leafed lupin (Lupinus angustifolius L.) by SSR markers

Ji, Yishan; Liu, Rong; Hu, Jinguo; Huang, Yu‐Ning; Wang, Dong; Guan, Li; Rahman, Mosiur; Zhang, Hongyan; Wang, Chenyu; Li, Mengwei; Yang, Tao; Zong, Xuxiao

doi:10.1007/s11033-020-05596-z

Cited by 7 publications

(9 citation statements)

References 39 publications

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“…expected heterozigosity) (0.31) is close to the average value obtained in this study (0.427). A very similar gene diversity index was reported by Ji et al [62] (0.476) for narrow-leafed lupin (L. angustifolius) using 76 SSR markers. On the contrary, Skorupski et al [63] indicated that average heterozigosity of L. nootkatensis is 0.03.…”

Section: Discussionsupporting

confidence: 86%

“…According to AMOVA, the greatest variation exist within accessions of tarwi (92.41%), which is explained by the sexual propagation of this species. In addition, low genetic variation between tarwi populations may be due to gene flow caused by the exchange of seeds, as depicted for L. angustifolius [62]. Similarly, Atnaf et al [61] indicated that 92% of allelic variability was attributed to individuals within populations of L. albus.…”

Section: Discussionmentioning

confidence: 99%

“…In addition, this clustering pattern may be due to the common process of exchanging tarwi seeds by growers living in close geographic areas like the center and south of Peru versus farthest places (northern area). Other lupin species such as L. albus [61], L. angustifolius [62] were also grouped into two populations.…”

Section: Discussionmentioning

confidence: 99%

“…Consequently, this crop should be treated as a cross-pollinated plant in breeding programs. Similarly, L. albus [71], L. nootkatnsis [63] and L. angustifolius [62] depend also on cross-pollination. In the Andean Peruvian zone it is very common to observe populations of cultivated tarwi coexisting with its wild relative, L. piurensis [12], which could favor interbreeding.…”

Section: Discussionmentioning

confidence: 99%

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Genetic Diversity and Population Structure of the Peruvian Andean Legume, tarwi (Lupinus mutabilis), With High Quality SNPs

Huaringa-Joaquín¹,

Saldaña²,

Saravia³

et al. 2023

Preprint

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Lupinus mutabilis Sweet (Fabaceae), “tarwi” or “chocho”, is an important grain legume in the Andean region. In Peru, studies on tarwi have been mainly focused on morphological features, however, the have not been molecularly characterized. Currently, it is possible to explore genetic parameters of plants with reliable and modern methods like genotyping-by-sequencing (GBS). We here for the first time used single nucleotide polymorphisms (SNPs) markers to infer the genetic diversity and population structure of 89 accessions of tarwi from nine Andean regions of Peru. A total of 5922 SNPs distributed along all chromosomes of tarwi were identified. STRUCTURE analysis revealed that this crop is grouped into two clusters. A dendrogram was generated using the UPGMA clustering algorithm and, similar to the principal coordinate analysis (PCoA), it showed two groups that correspond to the geographic origin of the tarwi samples. AMOVA showed a reduced variation between clusters (7.59 %) and indicated that variability within populations is 92.41 %. Population divergence (Fst) between clusters 1 and 2 revealed low genetic difference (0.019). We also detected a negative Fis for both populations, demonstrating that, similar to other Lupinus species, tarwi also depends on cross-pollination. SNPs markers were powerful and effective for the genotyping process in this germplasm. We hope that this information is the beginning of the path towards a modern genetic improvement and conservation strategies of this important Andean legume.

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Section: Discussionsupporting

confidence: 86%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

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Genetic Diversity and Population Structure of the Peruvian Andean Legume, tarwi (Lupinus mutabilis), With High Quality SNPs

Huaringa-Joaquín¹,

Saldaña²,

Saravia³

et al. 2023

Preprint

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“…A very low genetic variation in C. albidum population was discovered by SSR markers suggested the need for preserving the remnant inherent diversity towards capturing the existing local adaptation (Boboye et al, 2018). To assess the genetic diversity of 109 newly introduced accessions of narrow-leafed lupin (Lupinus angustifolius L.), a great potential to be a new crop in China (Ji et al, 2020), 76 genomic SSR markers were utilized. SSR markers were also applied for evaluating the genetic structure and gene flow pattern of 285 domestication cotton to provide useful information for understanding the genetic base of upland cotton superior varieties and will also promote future high yield and excellent fiber quality breeding (Zhang et al, 2020).…”

Section: Genetic Diversity Analysis In Crop Plantsmentioning

confidence: 99%

Molecular markers for analysis of plant genetic diversity

Nam¹,

Hang²,

Linh³

et al. 2021

Vietnam J. Biotechnol.

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Genetic diversity plays an important role in diversity conservation at multiple levels and supports to monitor and assess genetic variation. In plants, genetic diversity provides the ability to adapt and respond to environmental conditions that helps plants to survive through changing environments. Genetic diversity analyses based on molecular genetic markers are effective tools for conservation and reintroduction of rare and endangered species. In recent years, the development of various chemical and molecular techniques for studying genetic diversity has received great attention. While biochemical markers are primarily used in the diagnosis of pathogens, DNA markers have been developed and widely applied for identification of species and population based on the genotype of an organism that is more stable and not easily affected by the environmental factors. PCR-based molecular marker tools, such as restriction fragment length polymorphisms (RFLPs), random amplified polymorphic DNA (RAPD), simple sequence repeats (SSRs) are used for analysing the difference in the targeted DNA sequences. With the rapid and robust development of genomic sequencing technology it is now possible to obtain and analyse DNA sequences of the whole genome of studied organisms. However, each type of DNA markers has different principles, as well as the pros and cons of specificity. In this article, we review methods and point out DNA markers, which are considered as reliable and widely used tools for the detection of genetic variation. In addition, we present the application of DNA marker in analysing genetic diversity of wild, domestic and medicinal plants, as well as some perspectives on the future of DNA marker’s application in the analysis of genetic diversity.

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Molecular markers and phenotypic identification reveal the genetic diversity and structure of four local tea plant populations in China

Wang¹,

Peng²,

Yue³

et al. 2023

Genet Resour Crop Evol

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Genetic diversity analysis for narrow-leafed lupin (Lupinus angustifolius L.) by SSR markers

Cited by 7 publications

References 39 publications

Genetic Diversity and Population Structure of the Peruvian Andean Legume, tarwi (Lupinus mutabilis), With High Quality SNPs

Genetic Diversity and Population Structure of the Peruvian Andean Legume, tarwi (Lupinus mutabilis), With High Quality SNPs

Molecular markers for analysis of plant genetic diversity

Molecular markers and phenotypic identification reveal the genetic diversity and structure of four local tea plant populations in China

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