DNA barcoding of hydromedusae in northern Beibu Gulf for species identification

doi:10.17520/biods.2014089

Abstract

Abstract:

Being a major component of coastal zooplankton assemblages, hydromedusae play a key role in material recycling and energy flow of marine ecosystems. Species identification is challenging for this group due to their phonetic simplicity. DNA barcoding provides an efficient method for species identification. In the present study, 92 COI and 116 16S sequences from 28 hydromedusae species were amplified. A neighbor- joining phylogenetic tree was constructed based on Kimura 2-parameter genetic distance and further studied using Klee-diagram vector analysis. Intra-specific K2P genetic distance averaged 0.008±0.005 (0-0.033) for COI, and 0.006±0.010 (0-0.047) for 16S; inter-specific K2P genetic distance averaged 0.298±0.128 (0.092- 0.597), and 0.394±0.195 (0.068-0.898) for COI and 16S, respectively. An obvious “barcoding gap” was detected for all species in both markers and all individuals of a species clustered together in both the COI and 16S trees. Further confirmatory evidence was also provided through indicator vector analysis. Hence, both COI and 16S appear to be accurate and efficient markers for hydromedusae identification in northern Beibu Gulf.

Key words: DNA barcoding, molecular marker, vector analysis, species identification, hydromedusae

Dangni Zhang, Lianming Zheng, Jinru He, Wenjing Zhang, Yuanshao Lin, Yang Li. DNA barcoding of hydromedusae in northern Beibu Gulf for species identification[J]. Biodiv Sci, 2015, 23(1): 50-60.

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URL: https://www.biodiversity-science.net/EN/10.17520/biods.2014089

https://www.biodiversity-science.net/EN/Y2015/V23/I1/50

Figures/Tables 5

References 56

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分类组别 Taxonomy group	COI					16S
分类组别 Taxonomy group	计数值 N	最小值 Min	最大值 Max	平均值 Mean	标准差 S.D.	计数值 N	最小值 Min	最大值 Max	平均值 Mean	标准差 S.D.
种内遗传距离 Intra-species	194	0.000	0.033	0.008	0.005	320	0.000	0.047	0.006	0.010
种间遗传距离 Inter-species	3,992	0.092	0.597	0.298	0.128	6,350	0.068	0.898	0.394	0.195
各属遗传距离 Intra-genus	370	0.092	0.215	0.171	0.032	316	0.068	0.225	0.157	0.044
多管水母属 Aequorea	41	0.126	0.160	0.148	0.016	75	0.085	0.127	0.109	0.014
和平水母属 Eirene	323	0.092	0.215	0.173	0.032	220	0.068	0.225	0.174	0.036
真瘤水母属 Eutima	6	0.203	0.212	0.208	0.003	15	0.184	0.189	0.187	0.002
玛拉水母属 Malagazzia	-	-	-	-	-	6	0.069	0.069	0.069	0.000
各科遗传距离 Intra-family	230	0.127	0.351	0.189	0.037	473	0.111	0.386	0.258	0.091
多管水母科 Aequoreidae	12	0.127	0.159	0.145	0.010	16	0.111	0.125	0.117	0.005
双生水母科 Diphyidae	9	0.347	0.351	0.349	0.002	169	0.360	0.386	0.373	0.007
和平水母科 Eirenidae	206	0.155	0.233	0.185	0.017	277	0.114	0.261	0.200	0.035
触丝水母科 Lovenellidae	-	-	-	-	-	6	0.202	0.205	0.203	0.001
玛拉水母科 Malagazziidae	3	0.175	0.177	0.175	0.001	5	0.121	0.132	0.128	0.006
各目遗传距离 Intra-order	940	0.105	0.566	0.199	0.075	1,847	0.086	0.775	0.211	0.096
花水母目 Anthoathecata	12	0.178	0.211	0.204	0.009	35	0.222	0.289	0.260	0.017
软水母目 Leptothecata	878	0.105	0.566	0.185	0.046	1,747	0.086	0.327	0.194	0.032
管水母目 Siphonophorae	50	0.446	0.499	0.483	0.014	65	0.366	0.775	0.659	0.148
各亚纲遗传距离 Intra-subclass	1,425	0.150	0.596	0.349	0.143	3,160	0.185	0.756	0.486	0.144
软水母亚纲 Hydroidolina	1,395	0.150	0.596	0.348	0.144	3,154	0.185	0.672	0.486	0.144
硬水母亚纲 Trachylinae	30	0.407	0.418	0.413	0.004	6	0.728	0.756	0.741	0.010
水螅虫纲遗传距离 Intra-class (Hydrozoa)	1,027	0.207	0.597	0.371	0.076	554	0.295	0.898	0.570	0.170

分类组别 Taxonomy group	COI					16S
分类组别 Taxonomy group	计数值 N	最小值 Min	最大值 Max	平均值 Mean	标准差 S.D.	计数值 N	最小值 Min	最大值 Max	平均值 Mean	标准差 S.D.
种内遗传距离 Intra-species	194	0.000	0.033	0.008	0.005	320	0.000	0.047	0.006	0.010
种间遗传距离 Inter-species	3,992	0.092	0.597	0.298	0.128	6,350	0.068	0.898	0.394	0.195
各属遗传距离 Intra-genus	370	0.092	0.215	0.171	0.032	316	0.068	0.225	0.157	0.044
多管水母属 Aequorea	41	0.126	0.160	0.148	0.016	75	0.085	0.127	0.109	0.014
和平水母属 Eirene	323	0.092	0.215	0.173	0.032	220	0.068	0.225	0.174	0.036
真瘤水母属 Eutima	6	0.203	0.212	0.208	0.003	15	0.184	0.189	0.187	0.002
玛拉水母属 Malagazzia	-	-	-	-	-	6	0.069	0.069	0.069	0.000
各科遗传距离 Intra-family	230	0.127	0.351	0.189	0.037	473	0.111	0.386	0.258	0.091
多管水母科 Aequoreidae	12	0.127	0.159	0.145	0.010	16	0.111	0.125	0.117	0.005
双生水母科 Diphyidae	9	0.347	0.351	0.349	0.002	169	0.360	0.386	0.373	0.007
和平水母科 Eirenidae	206	0.155	0.233	0.185	0.017	277	0.114	0.261	0.200	0.035
触丝水母科 Lovenellidae	-	-	-	-	-	6	0.202	0.205	0.203	0.001
玛拉水母科 Malagazziidae	3	0.175	0.177	0.175	0.001	5	0.121	0.132	0.128	0.006
各目遗传距离 Intra-order	940	0.105	0.566	0.199	0.075	1,847	0.086	0.775	0.211	0.096
花水母目 Anthoathecata	12	0.178	0.211	0.204	0.009	35	0.222	0.289	0.260	0.017
软水母目 Leptothecata	878	0.105	0.566	0.185	0.046	1,747	0.086	0.327	0.194	0.032
管水母目 Siphonophorae	50	0.446	0.499	0.483	0.014	65	0.366	0.775	0.659	0.148
各亚纲遗传距离 Intra-subclass	1,425	0.150	0.596	0.349	0.143	3,160	0.185	0.756	0.486	0.144
软水母亚纲 Hydroidolina	1,395	0.150	0.596	0.348	0.144	3,154	0.185	0.672	0.486	0.144
硬水母亚纲 Trachylinae	30	0.407	0.418	0.413	0.004	6	0.728	0.756	0.741	0.010
水螅虫纲遗传距离 Intra-class (Hydrozoa)	1,027	0.207	0.597	0.371	0.076	554	0.295	0.898	0.570	0.170

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