Genetic diversity of Dimocarpus longan in China revealed by AFLP markers and partial rbcL gene sequences

Lin, Tongxiang; Lin, Yanan; Ishiki, Koshun

doi:10.1016/j.scienta.2004.08.005

Cited by 19 publications

(12 citation statements)

References 5 publications

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“…Together these results indicated geographic patterns of genetic differentiation, which agree with findings reported previously [34]. The relatively low levels of genetic variation among the Chinese cultivars also suggested that they might have suffered a bottleneck during domestication [7,34]. These results suggested that the relationship among the 13 selected longan accessions was, at least partly, determined by their geographical distributions.…”

Section: Resultssupporting

confidence: 90%

Genome-wide sequencing of longan (Dimocarpus longan Lour.) provides insights into molecular basis of its polyphenol-rich characteristics

et al. 2017

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Longan (Dimocarpus longan Lour.), an important subtropical fruit in the family Sapindaceae, is grown in more than 10 countries. Longan is an edible drupe fruit and a source of traditional medicine with polyphenol-rich traits. Tree size, alternate bearing, and witches' broom disease still pose serious problems. To gain insights into the genomic basis of longan traits, a draft genome sequence was assembled. The draft genome (about 471.88 Mb) of a Chinese longan cultivar, “Honghezi,” was estimated to contain 31 007 genes and 261.88 Mb of repetitive sequences. No recent whole-genome-wide duplication event was detected in the genome. Whole-genome resequencing and analysis of 13 cultivated D. longan accessions revealed the extent of genetic diversity. Comparative transcriptome studies combined with genome-wide analysis revealed polyphenol-rich and pathogen resistance characteristics. Genes involved in secondary metabolism, especially those from significantly expanded (DHS, SDH, F3΄H, ANR, and UFGT) and contracted (PAL, CHS, and F3΄5΄H) gene families with tissue-specific expression, may be important contributors to the high accumulation levels of polyphenolic compounds observed in longan fruit. The high number of genes encoding nucleotide-binding site leucine-rich repeat (NBS-LRR) and leucine-rich repeat receptor-like kinase proteins, as well as the recent expansion and contraction of the NBS-LRR family, suggested a genomic basis for resistance to insects, fungus, and bacteria in this fruit tree. These data provide insights into the evolution and diversity of the longan genome. The comparative genomic and transcriptome analyses provided information about longan-specific traits, particularly genes involved in its polyphenol-rich and pathogen resistance characteristics.

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Section: Resultssupporting

confidence: 90%

Genome-wide sequencing of longan (Dimocarpus longan Lour.) provides insights into molecular basis of its polyphenol-rich characteristics

et al. 2017

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“…Besides, it has been contended that dominant markers could be more useful than microsatellite markers for assessing genetic diversity (Maguire et al 2002) and for population assignment (Russell et al 1997;Krauss 2000;Maguire et al 2002;Campbell et al 2003), especially in the case of weak population structuring. AFLP analysis has been validated as an efficient marker to analyse the genetic structure of populations of perennials including tree species (Weising et al 1995;Mueller and Wolfenbarger 1999;Muluvi et al 1999;Russell et al 1999;Cardoso et al 2000;Schmidt and Jensen 2000;Diaz et al 2001;Coart et al 2002Coart et al , 2003Hagen et al 2002;Maguire et al 2002;Steiger et al 2002;Van Droogenbroeck et al 2002;Lin et al 2005). AFLP analysis has been validated as an efficient marker to analyse the genetic structure of populations of perennials including tree species (Weising et al 1995;Mueller and Wolfenbarger 1999;Muluvi et al 1999;Russell et al 1999;Cardoso et al 2000;Schmidt and Jensen 2000;Diaz et al 2001;Coart et al 2002Coart et al , 2003Hagen et al 2002;Maguire et al 2002;Steiger et al 2002;Van Droogenbroeck et al 2002;Lin et al 2005).…”

Section: Introductionmentioning

confidence: 99%

Genetic analysis and historical perspective of cashew (Anacardium occidentaleL.) introduction into India

Archak

Gaikwad

Swamy

et al. 2009

Genome

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Cashew (Anacardium occidentale L.), introduced into India about 400 years ago, is distributed widely in the coastal regions as spontaneous populations as well as in cultivation. Despite the plant's commercial exploitation, little is known about its actual introduction and diversification. We attempted to construct these events by investigating the level of genetic variation and genetic structure of cashew populations collected from different geographical regions of India. A total of 91 individuals from four populations were analysed using AFLP markers and morphometric data. AFLP analysis based on 354 polymorphic loci revealed Indian cashew to have low but relatively substantial genetic diversity for an introduced species (H(E) = 0.262 and I(S) = 0.404). Twenty-seven qualitative and quantitative traits also revealed the existence of considerable morphometric variation (24% around the mean values). Bayesian cluster analysis based on AFLP data did not indicate the existence of definite population differentiation. Morphometric analysis allocated 12% variation among all four populations, whereas AFLP variation observed in cashew individuals was entirely within populations. The results, supporting the possibility of cashew having been introduced into India repeatedly over a period of time but at a single location (west coast), are discussed and their implications for germplasm management are described.

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“…Isozymes were fi rst used to identify longan cultivars in the 1980s (Chen and Ke 1989 ) ; however, this method was not very useful in distinguishing cultivars. RAPDs were the fi rst PCR-based marker developed for longan, allowing the separation of different groups and the identi fi cation of cultivars (Chen and Liu 2001 ;Lin et al 2005 ;Zhong et al 2007 ) . Yonemoto et al ( 2006 ) , using RAPD markers, was able to distinguish three different groups of germplasm from Taiwan, China, and Malaysia.…”

Section: Longanmentioning

confidence: 99%

Genomics of Tropical Fruit Tree Crops

Arias

Borrone

Tondo³

et al. 2012

Genomics of Tree Crops

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The genetic improvement of tropical fruit trees is limited when compared to progress achieved in temperate fruit trees and annual crops. Tropical fruit tree breeding programs require signi fi cant resources to develop new cultivars that are adapted to modern shipping and storage requirements. The use of molecular markers in tropical fruit tree breeding is greatly assisting in solving a number of dif fi cult challenges for breeders such as the development of complex family structures for recombination mapping and for recurrent selection. A review of the literature on molecular markers development and new techniques for increasing single-nucleotide polymorphic markers is discussed. The development of marker-assisted breeding for these tropical tree crops is also discussed.

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Genetic diversity of Dimocarpus longan in China revealed by AFLP markers and partial rbcL gene sequences

Cited by 19 publications

References 5 publications

Genome-wide sequencing of longan (Dimocarpus longan Lour.) provides insights into molecular basis of its polyphenol-rich characteristics

Genome-wide sequencing of longan (Dimocarpus longan Lour.) provides insights into molecular basis of its polyphenol-rich characteristics

Genetic analysis and historical perspective of cashew (Anacardium occidentaleL.) introduction into India

Genomics of Tropical Fruit Tree Crops

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