genetic diversity assessment and validation of core collection of chinese oat with ssr markers...
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Genetic diversity assessment and validation of core collection of Chinese oat
with SSR markers
CAAS-Bioversity Centre of Excellence, c/o Institute of Crop Science, Chinese Academy of Agricultural Sciences, Beijing, China
Zongwen Zhang, Enlai Zhang, Bin Wu, Wei Xu, Yajun Hou, Huaijun Xiang
Introduction
• Oat is one of the important food and feed cereal crops in China, with cultivation area of 0.6-0.7 million hectares annually
• About 4000 accessions of oat were collected and conserved in China and a core subset was developed for promoting evaluation and utilization
• SSR marker is useful tool in genetic diversity assessment
• SSR marker was used to analyze the genetic diversity of the core subset of oat collection in China to provide molecular information for further validating the core collection
Material and methods
Core collection of oats: 458 accessions315 native accessions
143 introduced accessions
SSR marker (simple sequence repeats)DNA extraction
PCR protocol
Data analysis
Major results
• 72 alleles were identified, 4.8 alleles in each SSR locus
• M83381 is most polymorphic marker, with 11 alleles identified
• Average PIC is 0.6, with maximum of 0.789 expressed by M83381
• Shannon-weaver index:– Ranged from 0.459-1.118, with highest from American
accessions (1.118), followed by accessions from Eastern Europe (1.091).
– Within the country, accessions from Shanxi (1.085) and Inner Mongolia (1.033) have higher diversity than others
Origins Diversity Index
America (AM) 1.118
Western Europe (WE) 1.091
Shanxi (SX) 1.085
Inner Mongolia (IM) 1.033
Other countries (OT) 0.951
Eastern Europe (EE) 0.931
Hebei (HB) 0.923
Qinghai (QH) 0.918
Gansu/Ningxia (GN) 0.833
Southwest (SW) 0.828
Northeast (NE) 0.824
Shaanxi (SH) 0.73
Xinjiang (XJ) 0.459
Total 1.107
Table 2 Shannon-weaver index of accessions with different origins
• Genetic similarity coefficient:– Ranged from 0.346-0.517 among accessions with
different origins– Strong relationships between geographic accessions
observed, the closer the geographical areas, the closer the accessions from those areas
• Principle coordinate analysis– Group 1: Shanxi, Gansu and Ningxia– Group 2: Southwest of China– Group 3: Western Europe
Dim-1-15.34 -6.01 3.32 12.64 21.97
Dim-2
-18.86
-10.84
-2.82
5.19
13.21
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□ NE▲ EE
▽ GN ★ OT ※ HB ◆ AM ☆ IM
♀ QH▓ SX◎ SH
△ SW● WE♂ XJ
Fig 1. Two-dimension principal coordinate analysis based on SSR data