Comparison of Genetic Diversity Between Wild and ex-situ Conservation Populations of Cupressus chengiana

doi:10.7525/j.issn.1673-5102.2022.05.008

Abstract

Abstract:

To evaluate the genetic diversity level and provide theoretical basis of ex-situ conservation populations of Cupressus chengiana， the genetic diversity， genetic structure， and gene flow of ex-situ conservation populations and wild populations of C. chengiana were studied respectively. The principal component analysis（PCA）， cluster analysis， construction of molecular evolutionary tree， genetic diversity and genetic structure of three wild populations and ex-situ conservation populations based on SNP locus were obtained respectively from Genotyping-by-Sequencing technology（GBS） sequencing. The results showed that high quality clean data 118 321 514 728 bp was obtained by GBS sequencing， and 1 947 047 tags were developed. After being screened， a total of 1 259 610 of high-quality SNP sites were retained. The valley value of cross validation error rate determined that the optimal number of clusters was 1. The phylogenetic tree indicated that most of individuals ex-situ conservation populations and wild populations were clustered together. Both of combined ex-situ conservation populations and wild populations of C. chengiana had higher genetic diversity， and their value of heterozygosity（H_o）， expected heterozygosity（H_e）， Shannon information index（S_hi）， inbreeding coefficient（F_is）， and percentage of polymorphic loci（P_ic） were 0.181 5-0.272 0， 0.223 2-0.300 3， 0.331 0-0.464 9， 0.178 0-0.246 5 and 0.272 2-0.309 2， respectively. Genetic diversity of ex-situ conservation cultivated populations was relatively higher than the wild populations of C. chengiana， the value of H_e and S_hi was 0.300 3 and 0.464 9， respectively. The wild populationsof C. chengiana of Baiwan tunnel（BW）_vs_Songgang town（SA） had the greater genetic differentiation and the gene flow（N_m） were lower than other populations（F_st=0.091，N_m=2.496）. The results indicated that genetic differentiation had not occurred among these C. chengiana populations， and the gene had exchanges frequently among the ex-situ conservation populations and wild populations of C. chengiana（F_st<0.05， N_m>4）. There was a close genetic relationship between the ex-situ conservation individuals and the wild populations individuals， and there was no obvious clustering phenomenon. Thus， transplanting endangered plants was a better method in ex-situ conservation. This paper would provide a reference for the ex-situ conservation populations of wild populations C. chengiana and provided a theoretical reference for the conservation of other tree germplasm resources.

Key words: Cupressus chengiana, wild population, ex-situ conservation population, GBS, genetic diversity, genetic structure

CLC Number:

Q949.66+7

Ermei CHANG, Jianfeng LIU, Yuening HUANG, Hongli LI, Bingyan SHAN, Zeping JIANG, Xiulian ZHAO. Comparison of Genetic Diversity Between Wild and ex-situ Conservation Populations of Cupressus chengiana[J]. Bulletin of Botanical Research, 2022, 42(5): 772-779.

Figures/Tables 8

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采集地点 Location	居群类型 Population type	编号 Number	平均株高 Height /cm	植株数量 Number of sample individual
当卡村1 Dangka village 1	移栽居群 Ex-situ conservation population	DK-a1，DK-a2，DK-a3，DK-a4	72.38	4
当卡村2 Dangka village 2	移栽居群 Ex-situ conservation population	DK-b1，DK-b2，DK-b3，DK-b4	116.63	4
当卡村3 Dangka village 3	移栽居群 Ex-situ conservation population	DK-c1，DK-c2，DK-c3，DK-c4	178.40	4
当卡村4 Dangka village 4	移栽居群 Ex-situ conservation population	DK-d1，DK-d2、DK-d3，DK-d4	196.75	4
当卡村5 Dangka village 5	移栽居群 Ex-situ conservation population	DK-e1，DK-e2	279.51	2
当卡村苗圃 Dangka nursery	播种居群 Seeding population	MR-a1，MR-b1，MR-c1，MR-d1	55.75	4
松岗镇 Songgang town	野生居群 Wild population	SA-a1，SA-b1，SA-c1，SA-d1	134.48	4
热足电站 Rezu power station	野生居群 Wild population	RJ-a1，RJ-b1，RJ-c1，RJ-d1	121.67	3
白湾隧道 Baiwan tunnel	野生居群 Wild population	BW-a1，BW-b1，BW-c1，BW-d1	150.75	4

编号 Sample	数量 Number	观测杂合度 H_o	期望杂合度 H_e	基因多样性指数 N_ei	Shannon信息指数 S_hi	固定指数 F_index	居群平均π值 P_i	多态信息含量 P_ic
all	33	0.243 7	0.303 1	0.308 6	0.470 4	0.249 4	0.195 9	0.296 2
BW	4	0.242 0	0.248 9	0.291 4	0.371 0	0.199 3	0.027 7	0.294 4
DK	21	0.250 0	0.300 3	0.308 9	0.464 9	0.246 5	0.167 5	0.308 9
RJ	4	0.272 0	0.263 6	0.307 1	0.393 4	0.211 3	-0.031 9	0.309 2
SA	4	0.181 5	0.223 2	0.265 2	0.331 0	0.178 0	0.187 0	0.272 2

居群 Comparison between populations	遗传分化指数 Fst	基因流 Nm
F_st_BW_vs_DK	0.035 4	6.805 6
F_st_BW_vs_RJ	0.046 1	5.173 3
F_st_BW_vs_SA	0.091 0	2.497 0
F_st_DK_vs_RJ	0.022 6	10.815 9
F_st_DK_vs_SA	0.065 9	3.541 3

居群 Population	BW	DK	RJ	SA
BW	0.137	0.142	0.138	0.152*
DK		0.139	0.138	0.151*
RJ			0.132	0.148
SA				0.148

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