Construction of Fingerprinting and Genetic Diversity of Mulberry Cultivars in China by ISSR Markers

doi:10.1016/S0379-4172(06)60119-4

Acta Genetica Sinica

Volume 33, Issue 9, September 2006, Pages 851-860

https://doi.org/10.1016/S0379-4172(06)60119-4 Get rights and content

Abstract

The ISSR fingerprintings of 24 mulberry cultivars were constructed. Totally 80 bands were produced using 17 primers selected from 20 primers. Of them, 40 bands showed polymorphism. From the bands amplified, there were three independent ways to identify the mulberry varieties, such as unique ISSR markers, unique band patterns and a combination of the band patterns provided by different primers. ISSRs were very effective in differentiating the mulberry varieties. The mean genetic similarity coefficient, the mean Nei's gene diversity (h), and the mean Shannon's Information index (I) of mulberry cultivars were 0.8731, 0.1210, and 0.1942, respectively. This suggests that the genetic diversity of mulberry cultivars was low and the genetic base was narrow. Both UPGMA cluster and PCA (Principal Coordinates Analysis) analysis showed clear genetic relationships among the 24 mulberry cultivars. The major clusters were related to known pedigree relationships.

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Cited by (16)

Genome-wide SNP marker discovery and phylogenetic analysis of mulberry varieties using double-digest restriction site-associated DNA sequencing
2020, Gene
Citation Excerpt :
Previous phylogenetic studies have shown that delineating closely related species in mulberry is problematic. Despite this, attempts have been made to unravel the mystery of the genetic diversity and relationships of mulberry using different molecular markers such as amplified fragment length polymorphism (AFLP) (Sharma et al., 2000; Kafkas et al., 2008; Chumchuen and Kanekatsu, 2011), directed amplification of minisatellite DNA (DAMD) (Bhattacharya and Ranade, 2001), random amplified polymorphism DNA (RAPD) (Bhattacharya and Ranade, 2001; Awasthi et al., 2004; Vijayan et al., 2004; Orhan et al., 2007; Nepal, 2008; Ozrenk et al., 2010; İpek et al., 2012; Kalpana et al., 2012; Chikkaswamy and Chandra, 2014; Saha et al., 2016), simple sequence repeats (SSR) (Zhao et al., 2007; Mathithumilan et al., 2013; Mathi Thumilan et al., 2016), inter simple sequence repeats (ISSR) (Awasthi et al., 2004; Vijayan et al,. 2004, 2005, 2006a, 2006b; Zhao et al., 2006, 2007; İpek et al., 2012; Kalpana et al., 2012; Chikkaswamy and Chandra, 2014; Saha et al., 2016), sequence-related amplified polymorphism (SRAP) (Zhao et al., 2009), and internal transcribed spacer (ITS) (Nepal, 2008; Nepal and Ferguson, 2012; Zeng et al., 2015). However, phylogenetic relationships among diploid mulberry species remain unclear.
There has been long taxonomic debate on mulberry species (genus Morus) because the classification of mulberry species has relied on morphological characteristics. Although attempts for classifying mulberry species using molecular markers have been performed, phylogenetic relationships among diploid mulberry species remain unclear. In this study, we aim to investigate the genetic relationship between 54 diploid mulberry varieties belonging to seven different Morus species (M. alba, M. indica, M. bombycis, M. acidosa, M. latifolia, M. kagayamae, and M. rotundiloba) and one unspecified Morus species (‘Enbu’) using genome-wide SNP discovery and phylogenetic analysis via double-digest restriction site-associated DNA sequencing (ddRAD-seq). Genome-wide 2229 homozygous SNPs of 54 mulberry varieties in the eight species were identified by ddRAD-seq. Results of the phylogenetic analysis identified only three clear monophyletic clades in two Japanese native species, M. acidosa and M. kagayamae, which are found on different geographically isolated islands and a Thai species, M. rotundiloba, whereas the other species were non-monophyletic. Varieties of M. bombycis, another Japanese native species, were roughly classified into three groups. Of these, two M. bombycis groups were monophyletic with M. acidosa and M. kagayamae, respectively, while another M. bombycis group was not monophyletic. Varieties of M. indica, an Indian native species, were classified into two different monophyletic clades. Of these, one clade was clearly monophyletic with an indigenous variety in Kenya, ‘Enbu’, while another clade was monophyletic with M. rotundiloba and one M. latifolia variety. There were no clear monophyletic clades within M. alba and M. latifolia varieties, which could be a result of several hybridization events after their introductions from China to Japan. Our results suggested that it was difficult to clearly classify the hybridized mulberry varieties even with genome-wide DNA markers. In addition to phylogenetic analysis, we also evaluated morphological characteristics of mulberry leaves for each variety. The results of morphological evaluation indicated that leaf tip ratio may correlate to genetic difference among the two M. bombycis groups in monophyletic clades and another M. bombycis group in non-monophyletic clades. These results suggested that leaf tip ratio might be used for evaluating hybridization of M. bombycis varieties. Over all, our results may provide new insights into taxonomic debate of mulberry species.
Genetic stability and DNA fingerprinting of the Hemarthria compressa cultivar "Guangyi"
2014, Biochemical Systematics and Ecology
Citation Excerpt :
To characterize the genetic stability of H. compressa cultivars, we compared SRAP and ISSR patterns of 48 individuals from different geographic regions in southwest China. Identification and analysis of the genetic stability of H. compressa cultivars are traditionally based on morphological characters, and this kind of analysis requires careful and sometimes tedious observation (Zhao et al., 2006). In addition, morphological analysis takes a long time and is easily confounded by differences in the developmental stage, cultivation conditions, environmental conditions for growth, and even sampling error (Ge et al., 2012).
Genetic Diversity and Interrelationship Among Mulberry Genotypes
2007, Journal of Genetics and Genomics
Fourteen morphometric traits were used to examine the genetic divergence of 25 mulberry (Morus spp.) genotypes from varied agroclimatic conditions of India. Wide variation was observed for all the traits. The genotypes irrespective of their place of collection were grouped into 10 different clusters. Seven accessions, that is, Baragura-2, Gorabandha-2, Kalimpong, Herbertpur, Kollegal, Resham majri-7, and UP-14 each a cluster of unique entries will be of useful for genetic resources. Nevertheless, the correlation and path analysis suggest the direct selection of lamina length, fresh leaf weight, leaf area, and single leaf weight will be rewarding for mulberry leaf yield improvement.
Genome size, genetic diversity, and phenotypic variability imply the effect of genetic variation instead of ploidy on trait plasticity in the cross-pollinated tree species of mulberry
2023, PLoS ONE
Application of biotechnology in sericulture: Progress, scope and prospect
2022, Nucleus (India)
Inter simple sequence repeat analysis of genetic diversity and relationship in four egyptian flaxseed genotypes
2018, Pharmacognosy Research

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: This research was supported by the 10th Five-Year Key Programs for Science and Technology Develoment of China (No. 2004BA502B-01-07), National Infrastructure and Condition Platform Programs for Science and Technology Development (No. 2004DKA30390-09) and Chinese National Programs for High Technology Research and Development (No. 2003AA241220-1-6).

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Acta Genetica Sinica

Abstract

References (28)

Isolation and characterization of microsatellite loci from the mulberry, Morus L

Plant Sci

Genome fingerprinting by simple sequence repeat (SSR)-anchored polymerase chain reaction amplification

Genomics

Progress and prospect of germplasm resources and breeding of mulberry

Acta Sericologic Sin

Popularization of good mulberry varieties and sericultural development

Acta Sericologic Sin

Thremmatological studies of protein variation in mulberry

Bull Imp Sericult Exp Sta

A preliminary studies on isoenzyme of main mulberry varieties

Acta Sericologic Sin

Studies on cytochrome oxidase isoenzyme in morus with the disc electrophoresis

Acta Sericologic Sin

ISSR markers and their applications in plant genetics

Heriditas

The application of RAPD technology in genetic diversity detection of jute

Acta Genet Sin

Assesment of genetic diversity of allelopathic rice germplasm based on RAPD and ISSR

Acta Genet Sin

Assessment of genetic diversity of Rehmannia glutinosa Libosh. f. hueichingensis (Chao et Schih) Hsiao germplasm detected by RAPDs and ISSRs

Heriditas

Preliminary report on the application of RAPD in systematics of Morus L

Acta Sericologic Sin

Polymorphism studies on genomic DNA of mulberry

J Zhejiang Agri Univ

Molecular distinction amongst varieties of Mulberry using RAPD and DAMD profiles

BMC Plant Biol

Cited by (16)

Genome-wide SNP marker discovery and phylogenetic analysis of mulberry varieties using double-digest restriction site-associated DNA sequencing

Genetic stability and DNA fingerprinting of the Hemarthria compressa cultivar "Guangyi"

Genetic Diversity and Interrelationship Among Mulberry Genotypes

Genome size, genetic diversity, and phenotypic variability imply the effect of genetic variation instead of ploidy on trait plasticity in the cross-pollinated tree species of mulberry

Application of biotechnology in sericulture: Progress, scope and prospect

Inter simple sequence repeat analysis of genetic diversity and relationship in four egyptian flaxseed genotypes