文献类型：期刊文献

英文题名：Identification of single nucleotide polymorphisms and analysis of linkage disequilibrium in black poplar (Populus nigra L.) inbred lines using the candidate gene approach

作者：Liu, Xihua[1] Lin, Hai[1] Ding, Changjun[2] Su, Xiaohua[2]

第一作者：Liu, Xihua

通信作者：Su, XH[1]

机构：[1]Sanming Univ, Fujian Prov Key Lab Resources & Environm Monitor, Sanming, Fujian, Peoples R China;[2]Chinese Acad Forestry, State Forestry Adm, Key Lab Tree Breeding & Cultivat, Res Inst Forestry, Beijing, Peoples R China

年份：2021

卷号：49

期号：129

外文期刊名：SCIENTIA FORESTALIS

收录：;EI(收录号：20211910325547);Scopus(收录号：2-s2.0-85105264879);WOS:【SCI-EXPANDED(收录号:WOS:000745813600001)】；

基金：This work was financially supported by the National Natural Science Foundation of China (31870662, 31770710) and the Natural Science Foundation of Key University of Fujian Province (JZ160477).

语种：英文

外文关键词：Single nucleotide polymorphism (SNP); Populus nigra; Candidate gene; Linkage disequilibrium

摘要：Populus is an important model organism in forest biology, and Populus nigra is an important tree species in poplar breeding. This research studied the polymorphism pattern of nine candidate genes in regards to N absorption and assimilation in P. nigra. A total of 205 single nucleotide polymorphism (SNP) sites were found in nine genes. The average nucleotide diversity for the sequenced regions were calculated as theta(w)=0.00525 and Pi(T)=0.00380. The Ka:Ks ratios for all nine genes were lower than 1, indicating the action of purifying selection. Tests of neutrality for each gene revealed that the results reject neutral evolution at PTNRT1.2 and PttAMT1;2. The nucleotide sequences of PTNRT1.2 and PttAMT1;2 likely accepted negative selection, causing a hitchhiking effect. A recombination analysis of the nine candidate genes revealed that the average reorganization event between SNPs in P. nigra r is 0.1951. Linkage disequilibrium (LD) of SNPs in five candidate genes was detected, and the result showed that LD declined rapidly within these gene regions. These outcomes were similar to those determined for other trees, suggesting that wide LD mapping in the whole genome of Populus might be impossible and unnecessary, but LD mapping based on candidate genes could be particularly useful in poplar breeding programs. The results showed that P. nigra was suitable for association analysis with candidate genes and for the development of SNP markers. This article adds knowledge on N absorption and assimilation in poplars.