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Genetic analysis of Aphaniidae Hoedeman, 1949 (Teleostei: Cyprinodontiformes) family in Anatolia

Yıl 2021, Cilt: 6 Sayı: 4, 627 - 634, 31.12.2021
https://doi.org/10.35229/jaes.1030422

Öz

We tested the mitochondrial DNA cytochrome b gene-based (1065 bp.) phylogeny and genetic diversity of tooth-carp fish (Aphaniidae Hoedeman, 1949 family), many of which are endemic, with a very high species diversity in Anatolia. A total of 107 individuals were studied from 29 stations belonging to 19 Aphaniid species. For the Cytb gene, 44 haplotypes were identified, all of which were species-specific.
The phylogenetic relationships generated by neighbor joining, maximum likelihood and maximum parsimony methods are fully compatible with each other. The generally well supported phylogenetic tree results and genetic distance results supported a structure divided into four lineages corresponding to four genera (Anatolichthys, Paraphanius, Aphanius, and Kosswigichthys). The genetic distance between these four lineages indicated a significant value ranging from 16.6% to 23.1%. Genetic distance results interspecies indicated high genetic distances ranging from 1.9% to 24.52% (between A. villwocki and P. mentoides), except for two species groups (A. fontinalis – A. sureyanus, 0.13% and A. maeandricus – A. irregularis, 0.57%).
Our results also agree with a previous studies of the Anatolian Aphaniidae family, which showed a diversification pattern shaped by Pliocene orogenic events. The present results indicate that mitochondrial DNA cytochrome b gene sequences are effective for Aphaniidae species identification and phylogenetic analysis.

Teşekkür

We thank to Davut Turan (Rize), Fahrettin Küçük (Isparta), Baran Yoğurtçuoğlu (Ankara), Esra Bayçelebi (Rize), Cüneyt Kaya (Rize) and Salim Serkan Güçlü (Isparta) for their assistance in the fieldwork and species identification.

Kaynakça

  • Aksu, I. & Bektas, Y. (2019). Mitochondrial phylogeny and biogeography of the genus Gobio (Teleostei: Cyprinidae) in Turkey. Zoology in the Middle East, 65(2), 128-141.
  • Anderson, S., Bankier, A. T., Barrell, B. G., de Bruijn, M. H. L., Coulson, A. R., Drouin, J., Eperon, I. C., Nierlich, D. P., Roe, B. A., Sanger, F., Schreier, P. H., Smith, A. J. H., Staden, R. & Young, I. G. (1981). Sequence and organization of the human mitochondrial genome. Naturevolume, 290, 457-465.
  • Bardakçı, F., Tatar, N. & Hrbek, T. (2004). Genetic relationships between Anatolian species and subspecies of Aphanius Nardo, 1827 (Pisces, Cyprinodontiformes) based on RAPD markers. Biologia, 59(5), 559-566.
  • Bloom, J.D. (2014). An experimentally determined evolutionary model dramatically improves phylogenetic fit. Molecular Biology and Evolution, 31, 1956-1978.
  • Coad, B.W. (2000). Distribution of Aphanius species in Iran. Journal of the American Killifish Association, 33, 183-191.
  • Esmaeili, H. R., Teimori, A., Zarei, F. & Sayyadzadeh, G. (2020). DNA barcoding and species delimitation of the Old World tooth-carps, family Aphaniidae Hoedeman, 1949 (Teleostei: Cyprinodontiformes). Plos One, 15, 1-26. Doi: 10.1371/journal.pone.0231717
  • Firnberg, E., Labonte, J.W., Gray, J.J. & Ostermeier, M. (2014). A Comprehensive, HighResolution Map of a Gene's Fitness Landscape. Molecular Biology and Evolution, 31, 1581-1592.
  • Freyhof, J. & Yoğurtçuoğlu, B. (2020). A proposal for a new generic structure of the killifish family Aphaniidae, with the description of Aphaniops teimorii (Teleostei: Cyprinodontiformes). Zootaxa, 4810(3), 421-451. Doi: 10.11646/zootaxa.4810.3.2.
  • Freyhof, J. (2014). Aphanius danfordii, The IUCN Red List of Threatened Species. Version 2014.3.
  • Geiger, M.F., Herder, F., Monaghan, M.T., Almada, V., Barbieri, R., Bariche, M., Berrebi, P., Bohlen, J., Casal-Lopez, M., Delmastro, et al. (2014). Spatial heterogeneity in the Mediterranean Biodiversity Hotspot affects barcoding accuracy of its freshwater fishes. Molecular Ecology Resources, 14, 1210-1221.
  • Gholami, Z., Esmaeili, H.R., Erpenbeck, D. & Reichenbacher, B. (2014). Phylogenetic analysis of Aphanius from the endorheic Kor River basin in the Zagros Mountains, southwestern Iran (Teleostei: Cyprinodontiformes: Cyprinodontidae). Journal of Zoological Systematics and Evolutionary Research, 52, 130-141.
  • Guindon, S. & Gascuel, O. (2003). A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Systematic Biology, 52(5), 696-704.
  • Hall, T.A. (1999). BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series, 41, 95-98.
  • Hrbek, T. & Meyer, A. (2003). Closing of the Tethys Sea and the phylogeny of eurasian killifishes (Cyprinodontiformes: Cyprinodontidae). Journal of Evolution Biology, 16, 17-36.
  • Hrbek, T. & Wildekamp, R.H. (2003). Aphanius villwocki, a new species from the Sakarya basin of central Anatolian plain, Turkey (Teleostei: Cyprinodontiformes). Ichthyological Exploration of Freshwaters, 14 (2), 137-144.
  • Hrbek, T., Küçük, F., Frickey, T., Stölting, K. N., Wildekamp, R. H. & Meyer, A. (2002). Molecular phylogeny and historical biogeography of the Aphanius (Pisces, cyprinodontiformes) species complex of Central Anatolia, Turkey. Molecular Phylogenetics and Evolution, 25, 125-137.
  • Hrbek, T., Stölting, K. N., Bardakçı, F., Küçük, F., Wildekamp, R. H. & Meyer, A. (2004). Plate tectonics and biogeographical patterns of the Pseudophoxinus (Pisces: Cypriniformes) species complex of central Anatolia, Turkey. Molecular Phylogenetics and Evolution, 32, 297-308.
  • Jacquier, H., Birgy, A., Le Nagard, H., Mechulam, Y., Schmitt, E., Glodt, J., Bercot, B., Petit, E., Poulain, J., Barnaud, G., Gros, P.A. & Tenaillon, O. (2013). Capturing the mutational landscape of the betalactamase TEM-1. Proceedings of the National Academy of Sciences of the United States of America, 110, 13067-13072.
  • Kimura, M. (1980). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution, 16, 111-120.
  • Kocher, T.D. & Stepien, C.A. (1997). Overview of the Classification and Phylogeny of Fishes. 29-30 s. T.D. Kocher and, C.A. Stepien (ed), Molecular Systematics of Fishes, 1997, Academic Press, ISBN: 9780080536910, 314 s.
  • Kosswig, C. (1967). Tethys and its relation to the peri-Mediterranean faunas of freshwater fishes. In: C.G. Adams & Ager, D.V., (Eds.), Aspects of Tethyan biogeography. Systematics Associa- tion Publication, pp. 313–324.
  • Kumar, S., Stecher, G., Li, M., Knyaz, C. & Tamura, K. (2018). MEGA X: Molecular evolutionary genetics analysis across computing platforms. Molecular Biology, 35, 1547-1549.
  • Librado, P. & Rozas, J. (2009). DnaSP v5: A software for comprehensive analysis of DNA polymorphism data. Bioinformatics, 25, 1451-1452.
  • Popov, S. V., Rögl, R., Rozanov, A. Y., Steininger, F. R., Shcherba, I. G. & Kovac, M. (Eds) (2004). Lithological-Paleogeographic maps of Paratethys.10 maps Late Eocene to Pliocene. Courier Forschungsinstitut Senckenberg, 250, 1-46.
  • Por, F.D. & Dimentman, C. (1989). The legacy of Tethys. An aquatic biogeogaphy of the Levant. Monographiae Biologicae, 165-168.
  • Posada, D. (2008). jModelTest: phylogenetic model averaging. Molecular Biology and Evolution, 25(7), 1253-1256.
  • Reichenbacher, B., Sienknecht, U., Küchenhoff, H. & Fenske, N. (2007). Combined otolith morphology and morphometry for assessing taxonomy and diversity in fossil and extant killifish (Aphanius, Prolebias). Journal of Morphology, 268, 898-915.
  • Schönhuth, S., Luikart, G. & Doadrio, I. (2003). Effects of a founder event and sup-plementary introductions on genetic variation in a captive breeding popu-lation of the endangered Spanish killifish. Journal of Fish Biology, 63, 1538–1551.
  • Swofford, D.L. (2003). PAUP. Phylogenetic Analysis Using Parsimony. Version 4. Sinauer Associates, Sunderland, Massachusetts.
  • Teimori, A., Esmaeili, H.R., Hamidan, N. & Reichenbacher, B. (2018). Systematics and historical biogeography of the Aphanius dispar species group (Teleostei: Aphaniidae) and description of a new species from Southern Iran. Journal of Zoological Systematics and Evolutionary Research, 56, 579-598. Doi: 10.1111/jzs.12228
  • Thompson, J. D., Higgins, D. G. & Gibson, T. J. (1994). CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighing, position-specific gap penalties and weight matrix choice. Nucleic Acid Research, 22, 4673-4680.
  • Wang, J., Raskin, L., Samuels, D.C., Shyr, Y. & Guo, Y. (2015). Genome measures used for quality control are dependent on gene function and ancestry, Bioinformatics, 31(3), 318–323.
  • Whitehead, A. (2009). Comparative mitochondrial genomics within and among species of killifish. BMC Ecology and Evolution, 9, 11. Doi: 10.1186/1471-2148-9-11
  • Wildekamp, R. H., Küçük, F., Ünlüsayın, M. & Neer, W. V. (1999). Species and subspecies of the genus Aphanius Nardo, 1827 (Pisces, Cyrinodontidae) in Turkey (Received; 1996). Turkish Journal of Zoology. 23, 23-44.
  • Wildekamp, R.H. (1993). A World of Killies, Atlas of the Oviparous Cyprinodontiform Fishes of the World, Volume I,” The Genera Adamas, Adinia, Aphanius, Aphyoplatys and Aphyosemion “, Published by the American Killifish Association, Inc., 311p, U.S.A.

Anadolu’daki Aphaniidae Hoedeman, 1949 (Teleostei: Cyprinodontiformes) ailesinin genetik analizi

Yıl 2021, Cilt: 6 Sayı: 4, 627 - 634, 31.12.2021
https://doi.org/10.35229/jaes.1030422

Öz

Anadolu'da çok yüksek tür çeşitliliğine sahip, çoğu endemik olan dişli sazancık balıklarının (Aphaniidae Hoedeman, 1949 familyası) mitokondriyal DNA sitokrom b genine (1065 bç.) dayalı filogenisini ve genetik çeşitliliğini test ettik. 19 Aphaniid türüne ait 29 istasyondan toplam 107 örnek incelenmiştir. Cytb geni için, tümü türe özgü olan 44 haplotip tanımlandı.
Komşu birleştirme, maksimum olabilirlik ve maksimum tutumluluk yöntemleriyle oluşturulan filogenetik ilişkiler birbiriyle tam uyumlu sonuçlar verdi. Genel olarak iyi desteklenen filogenetik ağaç sonuçları ve genetik uzaklık sonuçları, dört cinse (Anatolichthys, Paraphanius, Aphanius, and Kosswigichthys) karşılık gelen dört soydan oluşan bir yapıyı destekledi. Bu dört soy grubu arasındaki genetik mesafe %16,6 ile %23,1 arasında değişen ciddi bir değer gösterdi. Türler arası genetik mesafe sonuçları ise, iki tür grubu dışında (A. fontinalis – A. sureyanus ,%0.13 ve A. maeandricus – A. irregularis ,%0.57), %1.9 ile %24.52 arasında (A. villwocki ile P. mentoides arasında) değişen yüksek genetik uzaklık göstermiştir.
Sonuçlarımız aynı zamanda, Pliyosen orojenik olaylarıyla şekillenen bir çeşitlenme modeli gösteren Anadolu Aphaniidae familyasının önceki çalışmalarıyla da uyumludur. Mevcut sonuçlar, mitokondriyal DNA sitokrom b gen dizilerinin Aphaniidae türlerinin tanımlanması ve filogenetik analizi için etkili olduğunu göstermektedir.

Kaynakça

  • Aksu, I. & Bektas, Y. (2019). Mitochondrial phylogeny and biogeography of the genus Gobio (Teleostei: Cyprinidae) in Turkey. Zoology in the Middle East, 65(2), 128-141.
  • Anderson, S., Bankier, A. T., Barrell, B. G., de Bruijn, M. H. L., Coulson, A. R., Drouin, J., Eperon, I. C., Nierlich, D. P., Roe, B. A., Sanger, F., Schreier, P. H., Smith, A. J. H., Staden, R. & Young, I. G. (1981). Sequence and organization of the human mitochondrial genome. Naturevolume, 290, 457-465.
  • Bardakçı, F., Tatar, N. & Hrbek, T. (2004). Genetic relationships between Anatolian species and subspecies of Aphanius Nardo, 1827 (Pisces, Cyprinodontiformes) based on RAPD markers. Biologia, 59(5), 559-566.
  • Bloom, J.D. (2014). An experimentally determined evolutionary model dramatically improves phylogenetic fit. Molecular Biology and Evolution, 31, 1956-1978.
  • Coad, B.W. (2000). Distribution of Aphanius species in Iran. Journal of the American Killifish Association, 33, 183-191.
  • Esmaeili, H. R., Teimori, A., Zarei, F. & Sayyadzadeh, G. (2020). DNA barcoding and species delimitation of the Old World tooth-carps, family Aphaniidae Hoedeman, 1949 (Teleostei: Cyprinodontiformes). Plos One, 15, 1-26. Doi: 10.1371/journal.pone.0231717
  • Firnberg, E., Labonte, J.W., Gray, J.J. & Ostermeier, M. (2014). A Comprehensive, HighResolution Map of a Gene's Fitness Landscape. Molecular Biology and Evolution, 31, 1581-1592.
  • Freyhof, J. & Yoğurtçuoğlu, B. (2020). A proposal for a new generic structure of the killifish family Aphaniidae, with the description of Aphaniops teimorii (Teleostei: Cyprinodontiformes). Zootaxa, 4810(3), 421-451. Doi: 10.11646/zootaxa.4810.3.2.
  • Freyhof, J. (2014). Aphanius danfordii, The IUCN Red List of Threatened Species. Version 2014.3.
  • Geiger, M.F., Herder, F., Monaghan, M.T., Almada, V., Barbieri, R., Bariche, M., Berrebi, P., Bohlen, J., Casal-Lopez, M., Delmastro, et al. (2014). Spatial heterogeneity in the Mediterranean Biodiversity Hotspot affects barcoding accuracy of its freshwater fishes. Molecular Ecology Resources, 14, 1210-1221.
  • Gholami, Z., Esmaeili, H.R., Erpenbeck, D. & Reichenbacher, B. (2014). Phylogenetic analysis of Aphanius from the endorheic Kor River basin in the Zagros Mountains, southwestern Iran (Teleostei: Cyprinodontiformes: Cyprinodontidae). Journal of Zoological Systematics and Evolutionary Research, 52, 130-141.
  • Guindon, S. & Gascuel, O. (2003). A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Systematic Biology, 52(5), 696-704.
  • Hall, T.A. (1999). BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series, 41, 95-98.
  • Hrbek, T. & Meyer, A. (2003). Closing of the Tethys Sea and the phylogeny of eurasian killifishes (Cyprinodontiformes: Cyprinodontidae). Journal of Evolution Biology, 16, 17-36.
  • Hrbek, T. & Wildekamp, R.H. (2003). Aphanius villwocki, a new species from the Sakarya basin of central Anatolian plain, Turkey (Teleostei: Cyprinodontiformes). Ichthyological Exploration of Freshwaters, 14 (2), 137-144.
  • Hrbek, T., Küçük, F., Frickey, T., Stölting, K. N., Wildekamp, R. H. & Meyer, A. (2002). Molecular phylogeny and historical biogeography of the Aphanius (Pisces, cyprinodontiformes) species complex of Central Anatolia, Turkey. Molecular Phylogenetics and Evolution, 25, 125-137.
  • Hrbek, T., Stölting, K. N., Bardakçı, F., Küçük, F., Wildekamp, R. H. & Meyer, A. (2004). Plate tectonics and biogeographical patterns of the Pseudophoxinus (Pisces: Cypriniformes) species complex of central Anatolia, Turkey. Molecular Phylogenetics and Evolution, 32, 297-308.
  • Jacquier, H., Birgy, A., Le Nagard, H., Mechulam, Y., Schmitt, E., Glodt, J., Bercot, B., Petit, E., Poulain, J., Barnaud, G., Gros, P.A. & Tenaillon, O. (2013). Capturing the mutational landscape of the betalactamase TEM-1. Proceedings of the National Academy of Sciences of the United States of America, 110, 13067-13072.
  • Kimura, M. (1980). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution, 16, 111-120.
  • Kocher, T.D. & Stepien, C.A. (1997). Overview of the Classification and Phylogeny of Fishes. 29-30 s. T.D. Kocher and, C.A. Stepien (ed), Molecular Systematics of Fishes, 1997, Academic Press, ISBN: 9780080536910, 314 s.
  • Kosswig, C. (1967). Tethys and its relation to the peri-Mediterranean faunas of freshwater fishes. In: C.G. Adams & Ager, D.V., (Eds.), Aspects of Tethyan biogeography. Systematics Associa- tion Publication, pp. 313–324.
  • Kumar, S., Stecher, G., Li, M., Knyaz, C. & Tamura, K. (2018). MEGA X: Molecular evolutionary genetics analysis across computing platforms. Molecular Biology, 35, 1547-1549.
  • Librado, P. & Rozas, J. (2009). DnaSP v5: A software for comprehensive analysis of DNA polymorphism data. Bioinformatics, 25, 1451-1452.
  • Popov, S. V., Rögl, R., Rozanov, A. Y., Steininger, F. R., Shcherba, I. G. & Kovac, M. (Eds) (2004). Lithological-Paleogeographic maps of Paratethys.10 maps Late Eocene to Pliocene. Courier Forschungsinstitut Senckenberg, 250, 1-46.
  • Por, F.D. & Dimentman, C. (1989). The legacy of Tethys. An aquatic biogeogaphy of the Levant. Monographiae Biologicae, 165-168.
  • Posada, D. (2008). jModelTest: phylogenetic model averaging. Molecular Biology and Evolution, 25(7), 1253-1256.
  • Reichenbacher, B., Sienknecht, U., Küchenhoff, H. & Fenske, N. (2007). Combined otolith morphology and morphometry for assessing taxonomy and diversity in fossil and extant killifish (Aphanius, Prolebias). Journal of Morphology, 268, 898-915.
  • Schönhuth, S., Luikart, G. & Doadrio, I. (2003). Effects of a founder event and sup-plementary introductions on genetic variation in a captive breeding popu-lation of the endangered Spanish killifish. Journal of Fish Biology, 63, 1538–1551.
  • Swofford, D.L. (2003). PAUP. Phylogenetic Analysis Using Parsimony. Version 4. Sinauer Associates, Sunderland, Massachusetts.
  • Teimori, A., Esmaeili, H.R., Hamidan, N. & Reichenbacher, B. (2018). Systematics and historical biogeography of the Aphanius dispar species group (Teleostei: Aphaniidae) and description of a new species from Southern Iran. Journal of Zoological Systematics and Evolutionary Research, 56, 579-598. Doi: 10.1111/jzs.12228
  • Thompson, J. D., Higgins, D. G. & Gibson, T. J. (1994). CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighing, position-specific gap penalties and weight matrix choice. Nucleic Acid Research, 22, 4673-4680.
  • Wang, J., Raskin, L., Samuels, D.C., Shyr, Y. & Guo, Y. (2015). Genome measures used for quality control are dependent on gene function and ancestry, Bioinformatics, 31(3), 318–323.
  • Whitehead, A. (2009). Comparative mitochondrial genomics within and among species of killifish. BMC Ecology and Evolution, 9, 11. Doi: 10.1186/1471-2148-9-11
  • Wildekamp, R. H., Küçük, F., Ünlüsayın, M. & Neer, W. V. (1999). Species and subspecies of the genus Aphanius Nardo, 1827 (Pisces, Cyrinodontidae) in Turkey (Received; 1996). Turkish Journal of Zoology. 23, 23-44.
  • Wildekamp, R.H. (1993). A World of Killies, Atlas of the Oviparous Cyprinodontiform Fishes of the World, Volume I,” The Genera Adamas, Adinia, Aphanius, Aphyoplatys and Aphyosemion “, Published by the American Killifish Association, Inc., 311p, U.S.A.
Toplam 35 adet kaynakça vardır.

Ayrıntılar

Birincil Dil İngilizce
Bölüm Makaleler
Yazarlar

Mehmet Kuyumcu Bu kişi benim 0000-0003-3162-1179

İsmail Aksu 0000-0002-2104-9888

Yusuf Bektaş 0000-0002-8367-9746

Erken Görünüm Tarihi 30 Aralık 2021
Yayımlanma Tarihi 31 Aralık 2021
Gönderilme Tarihi 30 Kasım 2021
Kabul Tarihi 7 Aralık 2021
Yayımlandığı Sayı Yıl 2021 Cilt: 6 Sayı: 4

Kaynak Göster

APA Kuyumcu, M., Aksu, İ., & Bektaş, Y. (2021). Genetic analysis of Aphaniidae Hoedeman, 1949 (Teleostei: Cyprinodontiformes) family in Anatolia. Journal of Anatolian Environmental and Animal Sciences, 6(4), 627-634. https://doi.org/10.35229/jaes.1030422


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