基于28S rDNA的南海刺长腹剑水蚤(Oithona setigera)种群遗传多样性研究

doi:10.11978/2018112

Abstract

Abstract:

Oithona is one of the most abundant species of small and medium zooplankton in the ocean, and plays an important role in marine biogeographic genetics and ecology research. In this study, we employed 28S rDNA to analyze the population genetic structure and haplotype pattern of the most common species (Oithona setigera) in the South China Sea. A dataset of 792 bp in length sequences was obtained. The average contents of G+C (58.2%) were significantly higher than those of A+T (41.8%) in the fragment. A total of 28 haplotypes were defined from 186 individuals, of which the dominant haplotype H10 was found in 21 populations. The largest distance between two sampling sites harboring this haplotype is more than 1000 km, indicating Oithona setigera can achieve long distance disperse and be affected by ocean currents. The Mantel test showed that there was no linear correlation between the genetic distance and geographical distance (R= -0.04615, P=0.678); the RDA (redundancy analysis) results indicated space factor significantly affect the population genetic structure rather than environmental factors. The population genetic structure of Oithona setigera may be caused by colonization events followed by demographic expansions.

Key words: Oithona setigera, 28S rDNA, South China Sea, genetic differentiation, isolation-by-distance

CLC Number:

Q179.1

Yingying JI,Lei XU,Hong LI,Lianggen WANG,Feiyan DU. Genetic structure of Oithona setigera from South China Sea based on 28S rDNA gene[J].Journal of Tropical Oceanography, 2019, 38(3): 89-97.

Figures/Tables 7

Fig. 1

Tab. 1

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Fig. 3

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站位	纬度	经度	平均水温/℃	风速/(m·s^-1)	盐度/‰	叶绿素a/(mg·m^-3)	样本数量	单倍型数量	单倍型
S1	18°15′36″N	109°33'36"E	24.49	8.19	NaN	0.23	3	2	H10、H22
S2	18°26'59N	111°9'E	24.44	8.95	NaN	0.12	11	4	H8、H10、H14、H19
S3	17°34'12"N	109°45'E	24.60	8.71	NaN	0.13	9	3	H8、H10、H13
S4	17°37'12"N	111°5'59"E	24.71	9.35	33.24	0.11	11	2	H10、H25
S5	14°30'N	111°E	26.54	10.78	33.36	0.08	9	5	H4、H5、H7、H10、H20
S6	14°30'N	113°E	26.93	11.04	33.25	0.08	5	2	H7、H10
S7	12°30'N	111°E	26.84	10.73	34.12	0.11	11	4	H8、H10、H15、H13
S8	12°30'N	112°E	27.09	10.39	33.67	0.10	12	1	H10、H24
S9	12°30'N	113°E	27.23	10.13	33.50	0.08	3	2	H10、H18
S10	10°30'N	111°E	27.20	5.05	33.14	0.08	10	4	H8、H10、H23、H27
S11	10°30'N	113°E	27.36	4.35	33.53	0.10	9	2	H10、H16
S12	9°30'N	113°E	27.39	3.43	33.57	0.09	5	5	H10、H22、H17、H15、H26
S13	9°30'N	114°E	27.92	3.57	33.21	0.09	15	2	H10、H21
S14	9°30'N	115°E	28.13	5.88	33.36	0.11	20	6	H2、H6、H8、H10、H11、H17、H21
S15	10°30'N	115°E	27.97	7.62	33.32	0.10	6	2	H10、H23
S16	10°30'N	114°E	27.77	6.48	33.06	0.09	12	2	H10、H12
S17	11°30'N	114°E	27.57	9.17	33.25	0.11	6	4	H1、H10、H15、H23
S18	12°30'N	116°E	27.83	10.00	33.46	0.08	12	2	H10、H23
S19	18°14'23"N	108°57'E	25.06	7.77	NaN	0.98	4	1	H10
S20	14°30'N	117°E	27.50	10.60	33.42	0.10	4	2	H9、H10、H26
S21	14°30'N	116°E	27.55	10.90	33.36	0.09	2	2	H8、H10
S22	18°15'N	109°5'59"E	24.76	7.89	NaN	0.59	7	3	H23、H25、H28

	S8	S9	S10	S11	S12	S13	S14	S15	S16	S17	S18	S19	S20	S21
S9	0.89
S10	0.18	0.99
S11	0.02	0.87	0.16
S12	0.16	1.02	0.30	0.16
S13	0.45	1.12	0.58	0.43	0.58
S14	0.45	1.12	0.56	0.42	0.57	0.70
S15	0.06	0.91	0.20	0.04	0.17	0.47	0.47
S16	0.26	1.04	0.40	0.24	0.40	0.55	0.59	0.28
S17	0.09	0.95	0.23	0.08	0.18	0.50	0.50	0.09	0.32
S18	0.04	0.89	0.18	0.02	0.16	0.45	0.45	0.06	0.26	0.09
S19	0.25	1.13	0.42	0.26	0.29	0.69	0.68	0.24	0.50	0.22	0.25
S20	0.53	1.30	0.60	0.52	0.60	0.95	0.89	0.53	0.76	0.55	0.53	0.62
S21	1.78	2.17	1.79	1.76	1.90	1.94	1.94	1.81	1.90	1.84	1.78	2.03	1.98
S22	0.26	1.15	0.43	0.28	0.27	0.71	0.70	0.24	0.52	0.20	0.26	0.15	0.60	2.04

	S8	S9	S10	S11	S12	S13	S14	S15	S16	S17	S18	S19	S20	S21	S22
S1	660	740	878	940	1043	1087	1138	1044	987	891	943	65	898	805	49
S2	669	691	885	907	1016	1043	1079	977	937	832	842	234	764	679	218
S3	614	664	799	862	965	1009	1063	970	911	816	877	113	847	751	102
S4	578	605	793	819	927	957	997	897	852	749	776	238	720	629	223
S5	248	311	445	495	598	645	707	622	552	466	585	470	647	539	464
S6	248	223	495	445	557	567	598	495	458	351	394	600	431	323	590
S7	109	217	223	312	399	468	550	490	396	345	543	676	687	585	672
S8		109	248	248	351	399	468	396	312	245	435	718	585	487	712
S9			312	223	334	351	399	312	248	156	326	773	487	394	765
S10				219	246	347	452	438	328	346	589	889	789	702	887
S11					246	347	452	452	328	346	589	889	789	702	887
S12						110	220	246	156	248	468	1067	707	645	1061
S13							110	156	111	223	399	1115	645	598	1108
S14								111	156	248	351	1172	598	567	1164
S15									109	156	248	1080	495	458	1072
S16										111	312	1019	552	495	1011
S17											245	926	466	398	918
S18												990	248	223	979
S19													955	860	16
S20														108	941
S21															847

	RDA	R²	R²_adj	P
S (空间变量)	Global model(全模型)	0.759	0.638	0.003
	dbMEM2	0.281		0.015
	dbMEM4	0.190		0.010
	dbMEM6	0.120		0.025
	dbMEM7	0.099		0.019
E(环境变量)	Global model(全模型)	0.304	0.141	0.05
	FS(前向选择)	0.181	0.094	0.03
	Wind speed(风速)	0.170		0.048
	S+E(环境与空间变量)	0.722	0.611	0.002
	S\|E(单纯空间变量)	0.557	0.533	0.003
	E\|S(单纯环境变量)	0.165	0.077	NS
	Shard(环境与空间变量共享)		0.084
	Residuals(残差)		0.389

Genetic structure of Oithona setigera from South China Sea based on 28S rDNA gene

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[5]	LIU Didi, ZHANG Xiyang, SUN Fulin, WANG Mingzhuang, TAN Fei, SHI Qi, WANG Guan, YANG Hongqiang. Microbial communities and specific strains within beachrocks of the South China Sea: implications for the origin of beachrock* [J]. Journal of Tropical Oceanography, 2024, 43(4): 112-122.
[6]	JIANG Lyumiao, CHEN Tianran, ZHAO Kuan, ZHANG Ting, XU Lijia. Experimental study on bioerosion of marginal reefs in the Weizhou Island, northern South China Sea [J]. Journal of Tropical Oceanography, 2024, 43(3): 155-165.
[7]	XU Lijia, LIAO Zhiheng, CHEN Hui, WANG Yongzhi, HUANG Baiqiang, LIN Qiaoyun, GAN Jianfeng, YANG Jing. Community structure of scleractinian corals in the northern South China Sea and their responses to the marine heatwaves [J]. Journal of Tropical Oceanography, 2024, 43(3): 58-71.
[8]	ZHAO Minghui, YUAN Ye, ZHANG Jiazheng, ZHANG Cuimei, GAO Jinwei, WANG Qiang, SUN Zhen, CHENG Jinhui. New developments on the rift-breakup of the continent-ocean transition zone in the northern margin of the South China Sea [J]. Journal of Tropical Oceanography, 2024, 43(2): 173-183.
[9]	HUANG Yu, WANG Lin, MAI Zhimao, LI Jie, ZHANG Si. Isolation and characterization of sand fixation ability of bacteria in biological soil crusts of the tropical islands, South China Sea [J]. Journal of Tropical Oceanography, 2023, 42(6): 101-110.
[10]	WANG Chenyan, SHI Jingwen, YAN Annan, KANG Yaru, WANG Yuxuan, QIN Suli, HAN Minwei, ZHANG Ruijie, YU Kefu. Bioaccumulation characteristics and source apportionment of organophosphate esters in Acanthaster planci from the South China Sea [J]. Journal of Tropical Oceanography, 2023, 42(5): 30-37.
[11]	LI Niu, DI Pengfei, FENG Dong, CHEN Duofu. The impact of cold seepage on geochemical indices for redox conditions of marine sediments ―Site F active seep site in the northeastern South China Sea^* [J]. Journal of Tropical Oceanography, 2023, 42(5): 144-153.
[12]	ZHANG Zhisheng, XIE Lingling, LI Junyi, LI Qiang. Comparative analysis of mesoscale eddy evolution during life cycle in marginal sea and open ocean: South China Sea and Kuroshio Extension [J]. Journal of Tropical Oceanography, 2023, 42(4): 63-76.
[13]	YANG Lei, WEN Jinhui, WANG Qiang, LUO Xi, HUANG Huaming, HE Yunkai, CHEN Ju. Recent research progress in the influence of tropical cyclones on the Luzon Strait transport^* [J]. Journal of Tropical Oceanography, 2023, 42(3): 40-51.
[14]	ZHAO Zhongxian, SUN Zhen, MAO Yunhua, ZHANG Huodai. Heterogeneous extension and pulsed tectonic subsidence in the northern South China Sea margin^* [J]. Journal of Tropical Oceanography, 2023, 42(3): 96-115.
[15]	LIU Qinyan, LI Wenlian, SHI Rui, CHEN Ju, LI Chunhui, XIE Qiang. The characteristics of eddy in western boundary current of South China Sea and its relationship with winter circulation [J]. Journal of Tropical Oceanography, 2023, 42(3): 52-66.