Phylogenetic Analyses of Cyprinid Species from the Rokel River Basin of Sierra Leone, West Africa: Taxonomic, Biogeographic, and Conservation Implications
Abstract
:1. Introduction
2. Material and Methods
2.1. Study Area
2.2. Data Analysis
2.3. Phylogenetic Analysis
2.4. Species Delineation
3. Results
4. Discussion
4.1. Misidentification and Unrecognized Diversity
4.2. Genetic Placement of Prolabeo Batesi
4.3. Biogeographic Implication
4.4. Endemism and Conservation Implications
Author Contributions
Funding
Institutional Review Board Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
Abbreviations
RR | Rokel River basin |
IHB-CAS | Institute of Hydrobiology, Chinese Academy of Sciences |
ASAP | Assemble Species by Automatic Partitioning |
bPTP | Poisson Tree Processes |
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Species | Specimens ID | Countries | Locality/River | GenBank No. | Year Collected |
---|---|---|---|---|---|
Enteromius anema | AUF5493 | Guinea | Bafing | MF135226.1 | Hayes and Armbruster 2017 |
Enteromius anema | AUF5494 | Guinea | Bafing | MF135225.1 | |
Enteromius ablabes | Unknown | Ivory Coast | Agnebi | AF180835.1 | Tsigenopoulos et al., 1999 |
Enteromius macrops | AUF 5524 | Guinea | Forécariah | MF135212.1 | |
Enteromius macrops | Gui048 | Guinea | Forécariah | MF135201.1 | |
Enteromius macrops | Gui0237 | Guinea | Forécariah | MF135200.1 | |
Enteromius macrops | AUF5481 | Guinea | Safa-Khoure | MF135210.1 | |
Enteromius macrops | Guinea | Koumba | MF135203.1 | ||
Enteromius macrops | Guinea | Koumba | MF135202.1 | ||
Enteromius macrops | AUF5454 | Guinea | Tinkisso | MF135204.1 | |
Enteromius macrops | Guinea | Tinkisso | MF135205.1 | ||
Enteromius macrops | Guinea | Kolenté | MF135208.1 | ||
Enteromius macrops | AUF5476 | Guinea | Kolenté | MF135206.1 | |
Enteromius macrops | Guinea | Kolenté | MF135209.1 | ||
Enteromius macrops | Guinea | Kolenté | MF135207.1 | ||
Enteromius macrops | Guinea | Konkouré | AF180832.1 | ||
Enteromius macrops | Guinea | Doulou | MF135211.1 | ||
Enteromius camptacanthus | Unknown | Ghana | Lake Volta | KF791270.1 | |
Enteromius anema | Unknown | Nilo-Sudan | Blue Nile | KP712159.1 | |
Enteromius guildi | AUF5505 | Guinea | Zie | MF135218.1 | |
Enteromius cadenati | Unknown | Sierra Leone | Taia/Jong | AF180834.1 | |
Enteromius cadenati | AUF5364 | Guinea | Dimmah | MF135224.1 | |
Enteromius liberiensis | AUF5483 | Guinea | Safa-Khoure | MF135213.1 | |
Enteromius bigornei | MNCN: 46CK | Guinea | Kaba, Kouloundela | AY004752.1 | Machordom and Doadrio 2001 |
Enteromius aspilus | Unknown | Guinea | Konkouré | KF791275.1 | Schmidt et al., 2019 |
Enteromius foutensis | Gui0858 | Guinea | Little Scarcies | MK329230.1 | |
Enteromius foutensis | Gui0146 | Guinea | Little Scarcies | MK329231.1 | |
Enteromius foutensis | Gui0167 | Guinea | Little Scarcies | MF135220.1 | |
Enteromius foutensis | Gui0168 | Guinea | Little Scarcies | MF135219.1 | |
Enteromius foutensis | Gui3435 | Guinea | Konkouré | MK329229.1 | |
Enteromius foutensis | Gui3494 | Guinea | Konkouré | MK329228.1 | |
Enteromius foutensis | Gui0145 | Guinea | Konkouré | MK329227.1 | |
Enteromius foutensis | Gui_0206 | Guinea | Konkouré | MK329233.1 | |
Enteromius foutensis | Gui0146 | Guinea | Konkouré | MK329226.1 | |
Enteromius foutensis | Gui 0146 | Guinea | Konkouré | MK329225.1 | |
Enteromius foutensis | Gui_0204 | Guinea | Konkouré | MK329232.1 | |
Enteromius foutensis | Gui 0167 | Guinea | Konkouré | MK329224.1 | |
Enteromius foutensis | Gui 0018 | Senegal | Gambie/Senegali | MK329241.1 | |
Enteromius foutensis | Gui 0133 | Senegal | Gambie/Senegali | MK329240.1 | |
Enteromius cf. guildi | AUF5443 | Guinea | Bafing | MF135223.1 | Hayes and Armbruster 2017 |
Enteromius ablabes | AUF5431 | Guinea | Bafing | MF135227.1 | |
Enteromius ablabes | AUF5441 | Guinea | Bafing | MF135228.1 | |
Enteromius trispilos | AUF5496 | Guinea | Mia | MF135193.1 | Hayes and Armbruster 2017 |
Enteromius trispilos | AUF5498 | Guinea | Mia | MF135194 | |
Enteromius anema | AUF5493 | Guinea | Mia | MF135225.1 | |
Enteromius anema | AUF5494 | Guinea | Mia | MF135226.1 | |
Enteromius huguenyi | AUF5589 | Guinea | Masseni | MF135214.1 | |
Enteromius punctitaeniatus | AUF5610 | Guinea | Mafou | MF135199.1 | |
Enteromius profundus | DNG_PROF2_2 | Kenya | Kisumu | MH484558.1 | Ndeda, Mateos, and Hurtado 2018 |
Enteromius profundus | DNG_PROF4_4 | Kenya | Kisumu | MH484556.1 | |
Enteromius callipterus | Unknown | Gabon | Loa -Loa | AP009313.1 | Saitoh 2006 |
Enteromius callipterus | CBM-ZF-11498 | Gabon | Loa -Loa | KP712230.1 | |
Labeobarbus sacratus | MNCN 4CK | Guinea | Tangala | AF287445.1 | Tsigenopoulos, Naran, and Berrebi 1999 |
Enteromius tiekoroi | UAIC14166.05 | Sierra Leone | Mao | KP659410.1 | Yang et al., 2015 |
Labeobarbus sacratus | Guinea | Tangala | AF180868.1 | Tsigenopoulos, Naran, and Berrebi 1999 | |
Labeobarbus sacratus | AF287445.1 | ||||
Labeobarbus wurtzi | MNCN 92CK | Guinea | Kouloundela | AF287448.1 | |
Labeobarbus wurtzi | MNCN 91CK | Guinea | Kaba, | AF180864.1 | |
Labeo forskalii | CU 94562 | Ethiopia | Alwero | JX074287.1 | Yang and Mayden 2012 |
Labeo forskalii | UAIC14744.4 | Ethiopia | Alwero | FJ196833.1 | Beshera and Phillip 2019 |
Labeobarbus cyclorhynchus | CBM ZF 11452 | AP011359.1 | Miya 2009 | ||
Labeo forskalii | AAU:0512009 | Ethiopia | Alwero | FJ196831.1 | Tang, Getahun, and Liu 2009 |
Labeo lukulae | DRC | Lukula | JX097084.1 | Hirt 2012 | |
Labeo parvus | BMNH:2006.3.7.1 | Benin | bei Malauville | JX074292.1 | Yang and Mayden 2012 |
Labeo parvus | CBM: ZF: 12695 | Ethiopia | Alwero | AP013339.1 | Beshera and Phillip 2019 |
Labeo parvus | Ethiopia | Baro | JX074285.1 | Yang and Mayden 2012 | |
Labeo parvus | Ethiopia | Baro | JX074286.1 | ||
Raiamas senegalensis | Benin | Iguidi | AP010780.1 | Saitoh et al., 2008 | |
Raiamas senegalensis | HM224332.1 | ||||
Labeo horie | Ethiopia | Alwero | JX074288.1 | ||
Labeo nasus | DRC | Congo Basin | AP013333.1 | Miya 2013 | |
Labeo lineatus | AP012154.1 | ||||
Labeo altivelis | AP013322.1 | Miya 2011 | |||
Labeo coubie | Nigeria | Niger Basin | AP012149.1 | ||
Labeo coubie | JX074261.1 | ||||
Labeo altivelis | JX074228.1 | ||||
Raiamas steindachneri | N/A | AP012113.1 | |||
Raiamas cf. steindachneri | IHB29666 | Sierra Leone | Rokel/Seli/upper | MW660585 | This study |
Raiamas aff. scarciensis | IHB29555 | Sierra Leone | Rokel/lower | MW660586 | This study |
Labeo aff. coubie | IHB29688 | Sierra Leone | Rokel/Seli/upper | MW660599 | This study |
Labeo aff. parvus | IHB29699 | Sierra Leone | Rokel/Seli/upper | MW660600 | This study |
Labeo aff. parvus | IHB29799 | Sierra Leone | Rokel/Seli/upper | MW660601 | This study |
Labeobarbus wurtzi | IHB29999 | Sierra Leone | Rokel/Seli/lower | MW660597 | This study |
Labeobarbus wurtzi | IHB29999B | Sierra Leone | Rokel/Seli/lower | MW660597B | This study |
Labeobarbus sacratus | IHB29898 | Sierra Leone | Rokel/Seli/upper | MW660598 | This study |
Enteromius aff. foutensis | IHB29317 | Sierra Leone | Rokel/Seli/upper | MW660590 | This study |
Enteromius aff. foutensis | IHB29318 | Sierra Leone | Rokel/Seli/upper | MW660591 | This study |
Enteromius aff. foutensis | IHB29319 | Sierra Leone | Rokel/Seli/upper | MW660592 | This study |
Enteromius aff. foutensis | IHB29320 | Sierra Leone | Rokel/Seli/upper | MW660593 | This study |
Enteromius aff. foutensis | IHB29444 | Sierra Leone | Rokel/Seli/upper | MW660594 | This study |
Enteromius aff. liberiensis | IHB29241 | Sierra Leone | Rokel/Seli/upper | MW660587 | This study |
Enteromius aff. liberiensis | IHB29362 | Sierra Leone | Rokel/Seli/upper | MW660589 | This study |
Enteromius aff. liberiensis | IHB29242 | Sierra Leone | Rokel/Seli/upper | MW660588 | This study |
Enteromius aff. macrops | IHB29355 | Sierra Leone | Rokel/Seli/upper | MW660595 | This study |
Enteromius aff. macrops | IHB29610 | Sierra Leone | Rokel/Seli/upper | MW660596 | This study |
Enteromius aff. ablabes | IHB29544 | Sierra Leone | Rokel/Seli/upper | MZ013921 | This study |
Enteromius aff. ablabes | IHB29545 | Sierra Leone | Rokel/Seli/upper | MZ013922 | This study |
Prolabeo batesi | IHB29377 | Sierra Leone | Rokel/lower | MZ013919 | This study |
Prolabeo batesi | IHB29399 | Sierra Leone | Rokel/lower | MZ013920 | This study |
Paracanthocobitis zonalternans | Asia | MK608087.1 | Slechtova and Dvorak 2019 | ||
Paracanthocobitis mockenziei | MK608121.1 |
No. | Species | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | Labeobarbus wurtzi | ||||||||||||
2 | L. sacratus | 0.054 | |||||||||||
3 | Labeo forskallii | 0.182 | 0.157 | ||||||||||
4 | L aff. parvus | 0.180 | 0.159 | 0.080 | |||||||||
5 | L. parvus | 0.177 | 0.157 | 0.072 | 0.071 | ||||||||
6 | L. cyclorhynchus | 0.146 | 0.147 | 0.135 | 0.135 | 0.113 | |||||||
7 | L. longipinnis | 0.147 | 0.154 | 0.142 | 0.141 | 0.137 | 0.098 | ||||||
8 | L. aff. coubie | 0.161 | 0.168 | 0.135 | 0.143 | 0.130 | 0.097 | 0.068 | |||||
9 | L. coubie | 0.147 | 0.148 | 0.121 | 0.131 | 0.118 | 0.082 | 0.065 | 0.057 | ||||
10 | R. aff. steindachneri | 0.283 | 0.268 | 0.233 | 0.245 | 0.238 | 0.246 | 0.260 | 0.257 | 0.251 | |||
11 | R. steindachneri | 0.275 | 0.269 | 0.236 | 0.245 | 0.241 | 0.253 | 0.262 | 0.259 | 0.258 | 0.037 | ||
12 | R. scarciensis | 0.305 | 0.289 | 0.274 | 0.263 | 0.276 | 0.294 | 0.283 | 0.297 | 0.290 | 0.218 | 0.233 | |
13 | R. senegalensis | 0.292 | 0.284 | 0.268 | 0.259 | 0.263 | 0.249 | 0.281 | 0.260 | 0.260 | 0.216 | 0.229 | 0.204 |
No. | Species | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 16 | 17 | 18 | 19 | 20 | 21 | 22 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
1 | Prolabeo batesi | ||||||||||||||||||||||
2 | Enteromius trispilos | 0.155 | |||||||||||||||||||||
3 | Enteromius cadenati | 0.161 | 0.157 | ||||||||||||||||||||
4 | Enteromius aff. cadenati | 0.183 | 0.147 | 0.165 | |||||||||||||||||||
5 | Enteromius aff. liberiensis RR | 0.178 | 0.154 | 0.182 | 0.046 | ||||||||||||||||||
6 | Enteromius liberiensis | 0.149 | 0.118 | 0.159 | 0.129 | 0.133 | |||||||||||||||||
7 | Enteromius tiekoroi | 0.161 | 0.132 | 0.171 | 0.145 | 0.160 | 0.090 | ||||||||||||||||
8 | Enteromius macrops s.str. | 0.156 | 0.147 | 0.166 | 0.173 | 0.179 | 0.130 | 0.134 | |||||||||||||||
9 | Enteromius aff. macrops1 | 0.150 | 0.137 | 0.162 | 0.158 | 0.166 | 0.119 | 0.132 | 0.035 | ||||||||||||||
10 | Enteromius aff. macrops2 | 0.148 | 0.143 | 0.159 | 0.157 | 0.162 | 0.120 | 0.138 | 0.027 | 0.027 | |||||||||||||
11 | Enteromius aff. macrops RR | 0.148 | 0.145 | 0.169 | 0.169 | 0.175 | 0.121 | 0.134 | 0.027 | 0.029 | 0.024 | ||||||||||||
12 | Enteromius anema | 0.150 | 0.134 | 0.170 | 0.145 | 0.163 | 0.131 | 0.139 | 0.132 | 0.128 | 0.136 | 0.139 | |||||||||||
13 | Enteromius guildi | 0.155 | 0.138 | 0.171 | 0.150 | 0.169 | 0.135 | 0.139 | 0.135 | 0.129 | 0.142 | 0.142 | 0.006 | ||||||||||
14 | Enteromius aff. foutensis RR | 0.153 | 0.148 | 0.169 | 0.139 | 0.156 | 0.132 | 0.123 | 0.126 | 0.124 | 0.123 | 0.123 | 0.101 | 0.104 | |||||||||
15 | Enteromius foutensis s.str. | 0.151 | 0.144 | 0.167 | 0.137 | 0.141 | 0.128 | 0.134 | 0.121 | 0.118 | 0.117 | 0.122 | 0.105 | 0.109 | 0.039 | ||||||||
16 | Enteromius aff. foutensis1 | 0.162 | 0.148 | 0.167 | 0.143 | 0.154 | 0.133 | 0.126 | 0.122 | 0.115 | 0.117 | 0.124 | 0.087 | 0.089 | 0.068 | 0.068 | |||||||
17 | Enteromius aff. foutensis2 | 0.155 | 0.149 | 0.166 | 0.157 | 0.164 | 0.137 | 0.125 | 0.120 | 0.118 | 0.117 | 0.121 | 0.087 | 0.089 | 0.083 | 0.080 | 0.051 | ||||||
18 | Enteromius ablabes | 0.160 | 0.151 | 0.163 | 0.161 | 0.165 | 0.137 | 0.125 | 0.121 | 0.120 | 0.120 | 0.124 | 0.094 | 0.097 | 0.087 | 0.080 | 0.052 | 0.009 | |||||
19 | Enteromius punctitaeniatus | 0.162 | 0.153 | 0.165 | 0.162 | 0.165 | 0.137 | 0.126 | 0.122 | 0.121 | 0.122 | 0.124 | 0.096 | 0.098 | 0.087 | 0.081 | 0.054 | 0.011 | 0.001 | ||||
20 | Enteromius aff. ablabes1 | 0.144 | 0.137 | 0.134 | 0.164 | 0.161 | 0.134 | 0.145 | 0.129 | 0.128 | 0.123 | 0.129 | 0.137 | 0.140 | 0.118 | 0.125 | 0.118 | 0.112 | 0.112 | 0.113 | |||
21 | Enteromius profundus | 0.147 | 0.139 | 0.162 | 0.170 | 0.190 | 0.131 | 0.134 | 0.135 | 0.131 | 0.129 | 0.133 | 0.127 | 0.127 | 0.128 | 0.128 | 0.130 | 0.118 | 0.125 | 0.127 | 0.138 | ||
22 | Enteromius aff. anema | 0.147 | 0.149 | 0.167 | 0.151 | 0.168 | 0.128 | 0.132 | 0.139 | 0.124 | 0.135 | 0.135 | 0.133 | 0.134 | 0.116 | 0.128 | 0.120 | 0.108 | 0.113 | 0.115 | 0.126 | 0.116 | |
23 | Enteromius aff. ablabes RR | 0.142 | 0.137 | 0.156 | 0.133 | 0.139 | 0.106 | 0.120 | 0.135 | 0.130 | 0.137 | 0.139 | 0.118 | 0.120 | 0.118 | 0.113 | 0.116 | 0.106 | 0.104 | 0.105 | 0.119 | 0.101 | 0.098 |
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Kanu, U.C.; Liang, C.; Nwafor, C.C.; Shen, J.; Zhang, E. Phylogenetic Analyses of Cyprinid Species from the Rokel River Basin of Sierra Leone, West Africa: Taxonomic, Biogeographic, and Conservation Implications. Diversity 2022, 14, 299. https://doi.org/10.3390/d14040299
Kanu UC, Liang C, Nwafor CC, Shen J, Zhang E. Phylogenetic Analyses of Cyprinid Species from the Rokel River Basin of Sierra Leone, West Africa: Taxonomic, Biogeographic, and Conservation Implications. Diversity. 2022; 14(4):299. https://doi.org/10.3390/d14040299
Chicago/Turabian StyleKanu, Unisa Conteh, Cao Liang, Chinedu Charles Nwafor, Jianzhong Shen, and E Zhang. 2022. "Phylogenetic Analyses of Cyprinid Species from the Rokel River Basin of Sierra Leone, West Africa: Taxonomic, Biogeographic, and Conservation Implications" Diversity 14, no. 4: 299. https://doi.org/10.3390/d14040299
APA StyleKanu, U. C., Liang, C., Nwafor, C. C., Shen, J., & Zhang, E. (2022). Phylogenetic Analyses of Cyprinid Species from the Rokel River Basin of Sierra Leone, West Africa: Taxonomic, Biogeographic, and Conservation Implications. Diversity, 14(4), 299. https://doi.org/10.3390/d14040299