Identifying fish eggs and larvae: from classic methodologies to DNA metabarcoding.

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      Publisher: Reidel Country of Publication: Netherlands NLM ID: 0403234 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1573-4978 (Electronic) Linking ISSN: 03014851 NLM ISO Abbreviation: Mol Biol Rep Subsets: MEDLINE
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      Original Publication: Dordrecht, Boston, Reidel.
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    • Abstract:
      Studies involving fish eggs and larvae date back to the end of the nineteenth century. Since then, studies with ichthyoplankton have proved to be an essential tool, generating information for the knowledge of the ichthyofauna and the environmental inventory. Most of these studies reveal the difficulty of obtaining a precise taxonomic identification of the collected materials, making research with ichthyoplankton extremely challenging. With the advent of molecular biology, the use of markers such as COI enabled greater taxonomic precision, helping to understand events involving ichthyofauna. Now we can observe the evolution of the molecular identification tool for ichthyoplankton via DNA barcoding, which has been increasingly used over the last few decades. From 2000 to 2010, we found six publications; from 2011 to 2021, 75 papers were published, and in 2022 four studies. Our survey also showed the accuracy of molecular identification when compared to the taxonomic identification of these. In this review, we show the state of the art of studies that used barcode and DNA metabarcoding to identify fish eggs and larvae in different environments and discuss their importance as the best practice for working with these organisms.
      (© 2022. The Author(s), under exclusive licence to Springer Nature B.V.)
    • References:
      Ahlstrom EH, Moser HG (1976) Eggs and larvae of fishes and their role in systematic investigations in fisheries. Rev Des Trav l’Institut Des Pêches Marit 40(3–4):379–398.
      Akbar John, B., Sheikh, H. I., Jalal, K. C. A., Kamaruzzaman, B. Y., Sanower, H., Nur Hanisah, M., ... & Rozihan, M. DNA Barcoding of Ichthyoplankton and Juvenile Fishes of a Tropical River in Malaysia. In DNA Barcoding and Molecular Phylogeny (pp. 237–251). Springer, Cham. 2020.
      Almeida FS, Frantine-Silva W, Lima SC, Garcia DAZ, Orsi ML (2018) DNA barcoding as a useful tool for identifying non-native species of freshwater ichthyoplankton in the neotropics. Hydrobiologia 817(1):111–119. https://doi.org/10.1007/s10750-017-3443-5. (PMID: 10.1007/s10750-017-3443-5)
      Appleyard SA, Maher S, Miskiewicz AG, Lara-Lopez A, Matis P, Fielder DS, Suthers IM (2022) Genetic and morphological identification of formalin fixed, preserved larval fishes; can we have the best of both worlds? J Exp Mar Biol Ecol 553:151763. (PMID: 10.1016/j.jembe.2022.151763)
      Araujo-Lima C. Distribuição espacial e temporal de larvas de Characiformes em um sector do rio Amazonas, próximo a Manaus, AM 1984:84.
      Ardura A, Linde AR, Moreira JC, Garcia-Vazquez E (2010) DNA barcoding for conservation and management of Amazonian commercial fish. Biol Conserv 143(6):1438–1443. https://doi.org/10.1016/j.biocon.2010.03.019. (PMID: 10.1016/j.biocon.2010.03.019)
      Ardura A, Morote E, Kochzius M, Garcia-Vazquez E (2016) Diversity of planktonic fish larvae along a latitudinal gradient in the Eastern Atlantic Ocean estimated through DNA barcodes. Peer 4:e2438. (PMID: 10.7717/peerj.2438)
      Avise JC (1994) Molecular markers, natural history and evolution. Chapman & Hall, New York. (PMID: 10.1007/978-1-4615-2381-9)
      Avise JC (1974) Systematic value of electrophoretic data. Syst Biol 23(4):465–481. https://doi.org/10.1093/sysbio/23.4.465. (PMID: 10.1093/sysbio/23.4.465)
      Azmir IA, Esa YB, Amin SMN, Salwany MYI, Zuraina MYF (2020) DNA barcoding analysis of larval fishes in Peninsular Malaysia. J Environ Biol 41:1295–1308. (PMID: 10.22438/jeb/41/5(SI)/MS_23)
      Bartlett SE, Davidson WS (1992) FINS (forensically informative nucleotide sequencing): A procedure for identifying the animal origin of biological specimens. Biotechniques 12(3):408–411.
      Bartlett SE, Davidson WS (1991) Identification of thunnus tuna species by the polymerase chain reaction and direct sequence analysis of their mitochondrial cytochrome b genes. Can J Fish Aquat Sci 48(2):309–317. https://doi.org/10.1139/f91-043. (PMID: 10.1139/f91-043)
      Barzotto E, Sanches PV, Bialetzki A, Orvati L, Gomes LC (2015) Larvae of migratory fish (Teleostei: Ostariophysi) in the lotic remnant of the Paraná River in Brazil. Zool 32(4):270–280. https://doi.org/10.1590/S1984-46702015000400002. (PMID: 10.1590/S1984-46702015000400002)
      Batta-Lona PG, Galindo-Sánchez CE, Arteaga MC, Robles-Flores J, Jiménez-Rosenberg SPA (2019) DNA barcoding and morphological taxonomy: identification of lanternfish (Myctophidae) larvae in the Gulf of Mexico. Mitochondrial DNA Part A 30(2):375–383. (PMID: 10.1080/24701394.2018.1538364)
      Baumgartner G, Nakatani K, Cavicchioli M, Baumgartner M, do ST. (1997) Some aspects of the ecology of fish larvae in the floodplain of the high Paraná river, Brazil. Rev Bras Zool 14(3):551–563. https://doi.org/10.1590/s0101-81751997000300005. (PMID: 10.1590/s0101-81751997000300005)
      Baumgartner G, Nakatani K, Gomes L, Bialetzki A, Sanches P (2004) Identification of spawning sites and natural nurseries of fishes in the upper Paraná River. Brazil Environ Biol Fishes 71(2):115–125. https://doi.org/10.1007/s10641-004-0098-z. (PMID: 10.1007/s10641-004-0098-z)
      Baumgartner G, Nakatani K, Gomes LC, Bialetzki A, Sanches PV, Makrakis MC (2008) Fish larvae from the upper Paraná River: Do abiotic factors affect larval density? Neotrop Ichthyol 6(4):551–558. https://doi.org/10.1590/s1679-62252008000400002. (PMID: 10.1590/s1679-62252008000400002)
      Becker RA, Sales NG, Santos GM, Santos GB, Carvalho DC (2015) DNA barcoding and morphological identification of neotropical ichthyoplankton from the Upper Paraná and São Francisco. J Fish Biol 87(1):159–168. https://doi.org/10.1111/jfb.12707. (PMID: 10.1111/jfb.12707)
      Bialetzki A, Nakatani K, Sanches PV, Baumgartner G (2004) Eggs and larvae of the “curvina” Plagioscion squamosissimus (Heckel, 1840) (Osteichthyes, Sciaenidae) in the Baía River, Mato Grosso do Sul State. Brazil J Plankton Res 26(11):1327–1336. https://doi.org/10.1093/plankt/fbh123. (PMID: 10.1093/plankt/fbh123)
      Bialetzki A, Sanches PV, Cavicchioli M, Baumgartner G, Ribeiro RP, Nakatani K (1999) Drift of ichthyoplankton in two channels of the Paraná River, between Paraná and Mato Grosso do Sul states, Brazil. Brazilian Arch Biol Technol. https://doi.org/10.1590/s1516-89131999000100008. (PMID: 10.1590/s1516-89131999000100008)
      Bingpeng X, Heshan L, Zhilan Z, Chunguang W, Yanguo W, Jianjun W (2018) Dna barcoding for identification of fish species in the taiwan strait. PLoS ONE 13(6):e0198109. https://doi.org/10.1371/journal.pone.0198109. (PMID: 10.1371/journal.pone.0198109)
      BOLD. The Barcode of Life Data System 2022. http://www.boldsystems.org/index.php/Taxbrowser_Taxonpage?taxid=77 (accessed January 28, 2022).
      Boore JL (1999) Animal mitochondrial genomes. Nucleic Acids Res 27(8):1767–1780. https://doi.org/10.1093/nar/27.8.1767. (PMID: 10.1093/nar/27.8.1767)
      Bouchard C, Charbogne A, Baumgartner F, Maes SM (2020) West Greenland ichthyoplankton and how melting glaciers could allow Arctic cod larvae to survive extreme summer temperatures. Arctic Science 7(1):217–239. (PMID: 10.1139/as-2020-0019)
      Briñoccoli YF, Garrido GG, Alvarez A (2020) Dna barcoding identifies three species of croakers (Pisces, sciaenidae) in the ichthyoplankton of the high Paraná river. An Acad Bras Cienc 92(1):1–14. https://doi.org/10.1590/0001-3765202020180783. (PMID: 10.1590/0001-3765202020180783)
      Brown WM, George M, Wilson AC (1979) Rapid evolution of animal mitochondrial DNA. Proc Natl Acad Sci U S A 76(4):1967–1971. https://doi.org/10.1073/pnas.76.4.1967. (PMID: 10.1073/pnas.76.4.1967)
      Burghart SE, Van Woudenberg L, Daniels CA, Meyers SD, Peebles EB, Breitbart M (2014) Disparity between planktonic fish egg and larval communities as indicated by DNA barcoding. Mar Ecol Prog Ser 503:195–204. https://doi.org/10.3354/meps10752. (PMID: 10.3354/meps10752)
      Camacho-Gastélum R, Díaz-Viloria N, Sánchez-Velasco L, Jiménez-Rosenberg SPA, Perez-Enriquez R (2017) Molecular identification and morphological description of Micropogonias megalops, Cynoscion othonopterus, C. reticulatus and Menticirrhus nasus larvae, collected in the upper Gulf of California during Summer 2012. Mitochondrial DNA Part A DNA Mapping. 28(3):416–423. https://doi.org/10.3109/19401736.2015.1136302. (PMID: 10.3109/19401736.2015.1136302)
      Campagna AF, Eler MN, Espíndola ELG, Senhorini JA, Do Rêgo RF, Silva LOL. (2006) Dimethoate 40% organosphosphorous pesticide toxicity in Prochilodus lineatus (Prochilodontidae, Characiformes) eggs and larvae. Brazilian J Biol. 66:633–640.
      Canino MF, Paquin MM, Matarese AC (2019) Molecular identification of Bathymaster spp. (Bathymasteridae) larvae in the Gulf of Alaska and eastern Bering Sea. Mar Biodivers 49(1):539–545. https://doi.org/10.1007/s12526-017-0803-3. (PMID: 10.1007/s12526-017-0803-3)
      Chen W, Zhu S, Yang J, Li X, Li Y, Li J (2021) DNA barcoding reveals the temporal community composition of drifting fish eggs in the lower Hongshui River. China Ecol Evol 11(16):11507–11514. https://doi.org/10.1002/ece3.7943. (PMID: 10.1002/ece3.7943)
      Chen W, Li C, Yang J, Zhu S, Li J, Li Y, Li X (2021) Temporal species-level composition of larvae resources in the lower Pearl River drainage and implications for species’ reproductive cycles. Gene 776:145351. (PMID: 10.1016/j.gene.2020.145351)
      Chen W, Zhu S, Li X et al (2021) Molecular identification and temporal genetic differentiation of Cyprinus carpio (Cypriniformes: Cyprinidae) eggs attached on artificial fish nests. Conservation Genet Resour 13:175–181. https://doi.org/10.1007/s12686-021-01189-5. (PMID: 10.1007/s12686-021-01189-5)
      Choi HY, Choi HC, Kim S, Oh HJ, Youn SH (2022) Discovery of pelagic eggs of two species from the rare mesopelagic fish genus trachipterus (Lampriformes: Trachipteridae). J Marine Sci Eng 10(5):637. (PMID: 10.3390/jmse10050637)
      Choi HY, Oh J, Kim S (2018) Genetic identification of eggs from four species of Ophichthidae and Congridae (Anguilliformes) in the northern East China Sea. PLoS ONE 13(4):e0195382. (PMID: 10.1371/journal.pone.0195382)
      Chu, C., Loh, K. H., Ng, C. C., Ooi, A. L., Konishi, Y., Huang, S. P., & Chong, V. C. Using DNA barcodes to aid the identification of larval fishes in tropical estuarine waters (Malacca Straits, Malaysia). Zoological studies. 2019; 58.
      Clayton DA, Doda JN, Friedberg EC (1974) The absence of a pyrimidine dimer repair mechanism in mammalian mitochondria. Proc Natl Acad Sci U S A 71(7):2777–2781. https://doi.org/10.1073/pnas.71.7.2777. (PMID: 10.1073/pnas.71.7.2777)
      Collet A, Durand JD, Desmarais E, Cerqueira F, Cantinelli T, Valade P et al (2018) DNA barcoding post-larvae can improve the knowledge about fish biodiversity: an example from La Reunion, SW Indian Ocean. Mitochondrial DNA Part A 29(6):905–918. https://doi.org/10.1080/24701394.2017.1383406. (PMID: 10.1080/24701394.2017.1383406)
      Cunningham MK, Granberry WF Jr, Pope KL (2000) Shrinkage of inland silverside larvae preserved in ethanol and formalin. N Am J Fisheries Manage 20:816–818. (PMID: 10.1577/1548-8675(2000)020<0816:SOISLP>2.3.CO;2)
      Díaz-Viloria N, Sánchez-Velasco L, Lavín MF, Perez-Enriquez R, Jiménez-Rosenberg S, Godínez VM (2015) Genetic corroboration of Engraulis mordax larvae in the upper Gulf of California, a previously undescribed spawning habitat. Ichthyol Res 62(2):230–235. (PMID: 10.1007/s10228-014-0423-x)
      Duke EM, Burton RS (2020) Efficacy of metabarcoding for identification of fish eggs evaluated with mock communities. Ecol Evol 10(7):3463–3476. https://doi.org/10.1002/ece3.6144. (PMID: 10.1002/ece3.6144)
      Embke HS, Kocovsky PM, Richter CA, Pritt JJ, Mayer CM, Qian SS (2016) First direct confirmation of grass carp spawning in a Great Lakes tributary. J Great Lakes Res 42(4):899–903. (PMID: 10.1016/j.jglr.2016.05.002)
      Frantine-Silva W, Sofia SH, Orsi ML, Almeida FS (2015) DNA barcoding of freshwater ichthyoplankton in the Neotropics as a tool for ecological monitoring. Mol Ecol Resour 15(5):1226–1237. https://doi.org/10.1111/1755-0998.12385. (PMID: 10.1111/1755-0998.12385)
      Freitas-Souza D, Nobile AB, do Prado, F.D. et al (2022) Genetic markers indicate that hybrids of Pseudoplatystoma (Siluriformes, Pimelodidae) are reproducing in natural environments in southeastern Brazil. Biol Invasions 24:1049–1058. (PMID: 10.1007/s10530-021-02701-6)
      García-Dávila C, Chota-Macuyama W, Castro-Ruiz D, Vásquez G-C, Corazón M, García J, et al. Avances del uso del “Barcoding” en la identificación de larvas de bagres (Siluriformes) en la Amazonia peruana. Biol Las Poblaciones Peces Amaz y Piscic. 2011:61–9.
      García-Dávila CR, Castro Ruiz D, Sánchez Ribeiro H, Ismiño Orbe R, Rengifo Trigoso D, García-Vásquez Á et al (2014) Diversidad de ictioplancton en los ríos Curaray, Ararbela y Napo (Amazoniana Peruana) [Evaluation of ichthyoplankton diversity in high water and low water in the Curaray, Arabela and Napo Rivers (Peruvian Amazon)]. Folia Amaz 23(1):67–78. (PMID: 10.24841/fa.v23i1.9)
      García-Dávila C, Castro-Ruiz D, Renno JF, Chota-Macuyama W, Carvajal-Vallejos FM, Sanchez H, Duponchelle F (2015) Using barcoding of larvae for investigating the breeding seasons of Pimelodid catfishes from the Marañon, Napo and Ucayali rivers in the Peruvian Amazon. J Appl Ichthyol 31:40–51. (PMID: 10.1111/jai.12987)
      Garcia-Vazquez E, Georges O, Fernandez S, Ardura A (2021) eDNA metabarcoding of small plankton samples to detect fish larvae and their preys from Atlantic and Pacific waters. Sci Rep 11(1):1–13. (PMID: 10.1038/s41598-021-86731-z)
      Gleason LU, Burton RS (2012) High-throughput molecular identification of fish eggs using multiplex suspension bead arrays. Mol Ecol Resour 12(1):57–66. (PMID: 10.1111/j.1755-0998.2011.03059.x)
      Hänfling B, Handley LL, Read DS, Hahn C, Li J, Nichols P et al (2016) Environmental DNA metabarcoding of lake fish communities reflects long-term data from established survey methods. Mol Ecol 25(13):3101–3119. https://doi.org/10.1111/mec.13660. (PMID: 10.1111/mec.13660)
      Hanner R, Corthals A, Dessauer HC (2005) Salvage of genetically valuable tissues following a freezer failure. Mol Phylogenet Evol 34(2):452–455. https://doi.org/10.1016/j.ympev.2004.10.008. (PMID: 10.1016/j.ympev.2004.10.008)
      Harada AE, Lindgren EA, Hermsmeier MC, Rogowski PA, Terrill E, Burton RS et al (2015) Monitoring spawning activity in a Southern California marine protected area using molecular identification of fish eggs. PLoS ONE 10(8):1–21. https://doi.org/10.1371/journal.pone.0134647. (PMID: 10.1371/journal.pone.0134647)
      Harrison RG (1989) Animal mitochondrial DNA as a genetic marker in population and evolutionary biology. Trends Ecol Evol 4(1):6–11. https://doi.org/10.1016/0169-5347(89)90006-2. (PMID: 10.1016/0169-5347(89)90006-2)
      Hebert PDN, Ratnasingham S, DeWaard JR (2003) Barcoding animal life: Cytochrome c oxidase subunit 1 divergences among closely related species. Proc R Soc B Biol Sci 270(SUPPL. 1):96–99. https://doi.org/10.1098/rsbl.2003.0025. (PMID: 10.1098/rsbl.2003.0025)
      Hempel G. Fish Egg and Larval Surveys: Contributions to a Manual. FAO Fish Tech. 1973(Papers 122):1–82.
      Hofmann T, Knebelsberger T, Kloppmann M, Ulleweit J, Raupach MJ (2017) Egg identification of three economical important fish species using DNA barcoding in comparison to a morphological determination. J Appl Ichthyol 33(5):925–932. https://doi.org/10.1111/jai.13389. (PMID: 10.1111/jai.13389)
      Hoffman JC, Meredith C, Pilgrim E, Trebitz A, Hatzenbuhler C, Kelly JR, Martinson J (2021) Comparison of larval fish detections using morphology-based taxonomy versus high-throughput sequencing for invasive species early detection. Canadian J Fisheries Aquatic Sci 78(6):752–764. (PMID: 10.1139/cjfas-2020-0224)
      Hou G, Wang J, Chen Z, Zhou J, Huang W, Zhang H (2020) Molecular and morphological identification and seasonal distribution of eggs of four decapterus fish species in the northern South China sea: a key to conservation of spawning ground. Front Mar Sci. https://doi.org/10.3389/fmars.2020.590564. (PMID: 10.3389/fmars.2020.590564)
      Hou G, Chen Y, Wang J, Pan C, Lin J, Feng B, Zhang H (2022) Molecular identification of species diversity using pelagic fish eggs in spring and late autumn-winter in the Eastern Beibu Gulf. China Front Mar Sci 8:806208. (PMID: 10.3389/fmars.2021.806208)
      Hou G, Chen Y, Wang S, Wang J, Chen W, Zhang H (2021) Formalin-fixed fish larvae could be effectively identified by DNA barcodes: a case study on thousands of specimens in south China Sea. Front Mar Sci 8:634575. (PMID: 10.3389/fmars.2021.634575)
      Hubert N, Espiau B, Meyer C, Planes S (2015) Identifying the ichthyoplankton of a coral reef using DNA barcodes. Mol Ecol Resour 15(1):57–67. https://doi.org/10.1111/1755-0998.12293. (PMID: 10.1111/1755-0998.12293)
      Hulley EN, Taylor ND, Zarnke AM, Somers CM, Manzon RG, Wilson JY, Boreham DR (2018) DNA barcoding vs. morphological identification of larval fish and embryos in Lake Huron: Advantages to a molecular approach. J Great Lakes Res 44(5):1110–1116. (PMID: 10.1016/j.jglr.2018.07.013)
      Hyde JR, Lynn E, Humphreys R, Musyl M, West AP, Vetter R (2005) Shipboard identification of fish eggs and larvae by multiplex PCR, and description of fertilized eggs of blue marlin, shortbill spearfish, and wahoo. Mar Ecol Prog Ser 286:269–277. https://doi.org/10.3354/meps286269. (PMID: 10.3354/meps286269)
      Isari S, Pearman JK, Casas L, Michell CT, Curdia J, Berumen ML, Irigoien X (2017) Exploring the larval fish community of the central Red Sea with an integrated morphological and molecular approach. PLoS ONE 12(8):e0182503. (PMID: 10.1371/journal.pone.0182503)
      Kerr M, Browning J, Zhang Y, Hu C, Armenteros M, Murawski S et al (2020) DNA barcoding of fish eggs collected off northwestern Cuba and across the Florida Straits demonstrates egg transport by mesoscale eddies. Fish Oceanogr 29:340–348. https://doi.org/10.1111/fog.12475. (PMID: 10.1111/fog.12475)
      Kimmerling N, Zuqert O, Amitai G, Gurevich T, Armoza-Zvuloni R, Kolesnikov I et al (2018) Quantitative species-level ecology of reef fish larvae via metabarcoding. Nat Ecol Evol 2(2):306–316. https://doi.org/10.1038/s41559-017-0413-2. (PMID: 10.1038/s41559-017-0413-2)
      Kipper D, Bialetzki A, Santin M (2011) Composição taxonômica da assembleia de larvas de peixes no reservatório de Rosana, Rio Paranapanema. Brasil Biota Neotrop 11(1):421–426. (PMID: 10.1590/S1676-06032011000100039)
      Ko HL, Wang YT, Chiu TS, Lee MA, Leu MY, Chang KZ et al (2013) Evaluating the accuracy of morphological identification of larval fishes by applying DNA barcoding. PLoS ONE 8(1):3–9. https://doi.org/10.1371/journal.pone.0053451. (PMID: 10.1371/journal.pone.0053451)
      Lamia D, Théophile U, Hinde A, Mohamed M, Tarik B, Abdelaziz S (2021) Comparison and validation of Ichthyoplankton DNA extraction methods. Methods Protocols 4(4):87. (PMID: 10.3390/mps4040087)
      Landi M, Dimech M, Arculeo M, Biondo G, Martins R, Carneiro M et al (2014) DNA barcoding for species assignment: The case of Mediterranean marine fishes. PLoS ONE 9(9):1–9. https://doi.org/10.1371/journal.pone.0106135. (PMID: 10.1371/journal.pone.0106135)
      Larson JH, McCallag SG, Chapman DC, Rees C, Knights BC, Vallazza JM et al (2016) Genetic analysis shows that morphology alone cannot distinguish asian carp eggs from those of other cyprinid species. North Am J Fish Manag 36(5):1053–1058. https://doi.org/10.1080/02755947.2016.1185057. (PMID: 10.1080/02755947.2016.1185057)
      Lasker R (1987) Use of fish eggs and larvae in probing some major problems in fisheries and aquaulture. Am Fish Soc Symp 2:1–16.
      Lee SJ, Kim JK (2014) Identification of Trichiurus (Pisces: Trichiuridae) eggs and larvae from Korea, with a taxonomic note. Fisheries Aquatic Sci 17(1):137–143. (PMID: 10.5657/FAS.2014.0137)
      Lewis LA, Richardson DE, Zakharov EV, Hanner R (2016) Integrating DNA barcoding of fish eggs into ichthyoplankton monitoring programs. Fish Bull 114(2):153–165. https://doi.org/10.7755/FB.114.2.3. (PMID: 10.7755/FB.114.2.3)
      Leyva-Cruz E, Vásquez-Yeomans L, Carrillo L, Valdez-Moreno M, Steinke D (2016) Identifying pelagic fish eggs in the southeast Yucatan Peninsula using DNA barcodes. Genome 59(12):1117–1129. https://doi.org/10.1139/gen-2015-0151. (PMID: 10.1139/gen-2015-0151)
      de Lima MCC, Lima SC, Savada CS, Suzuki KM, Orsi ML, de Almeida FS (2020) Use of dna barcode in the identification of fish eggs in tributaries of the paranapanema river basin. Genet Mol Biol 43(3):1–9. https://doi.org/10.1590/1678-4685-gmb-2019-0352. (PMID: 10.1590/1678-4685-gmb-2019-0352)
      Lin Junzhuo Wu, Hao CK, Qinghong Du, Zhiwei H, Kun H, Lianming Z (2018) Application of DNA barcoding in the classification and identification of fish eggs and larvae and juveniles in Xiamen Bay. Fish Res 40(5):340–348.
      Lin HY, Chiu MY, Shih YM, Chen IS, Lee MA, Shao KT (2016) Species composition and assemblages of ichthyoplankton during summer in the East China Sea. Cont Shelf Res 126:64–78. (PMID: 10.1016/j.csr.2016.07.016)
      Liu M, Wang D, Gao L, Tian H, Liu S, Chen D, Duan X (2018) Species diversity of drifting fish eggs in the Yangtze River using molecular identification. PeerJ 6:e5807. https://doi.org/10.7717/peerj.5807. (PMID: 10.7717/peerj.5807)
      Maggia ME, Vigouroux Y, Renno JF, Duponchelle F, Desmarais E, Nunez J et al (2017) DNA metabarcoding of amazonian ichthyoplankton swarms. PLoS ONE 12(1):1–14. https://doi.org/10.1371/journal.pone.0170009. (PMID: 10.1371/journal.pone.0170009)
      Mariac C, Vigouroux Y, Duponchelle F, García-Dávila C, Nunez J, Desmarais E et al (2018) Metabarcoding by capture using a single COI probe (MCSP) to identify and quantify fish species in ichthyoplankton swarms. PLoS ONE 13(9):1–15. https://doi.org/10.1371/journal.pone.0202976. (PMID: 10.1371/journal.pone.0202976)
      Matarese AC, Spies IB, Busby MS, Orr JW (2011) Early larvae of Zesticelus profundorum (family Cottidae) identified using DNA barcoding. Ichthyol Res 58(2):170–174. https://doi.org/10.1007/s10228-010-0198-7. (PMID: 10.1007/s10228-010-0198-7)
      Mateos-Rivera A, Skern-Mauritzen R, Dahle G, Sundby S, Mozfar B, Thorsen A et al (2020) Comparison of visual and molecular taxonomic methods to identify ichthyoplankton in the North Sea. Limnol Oceanogr Methods 18(10):599–605. https://doi.org/10.1002/lom3.10387. (PMID: 10.1002/lom3.10387)
      Matsuura Y (1977) A study of the life history of Brazilian sardine, Sardinella brasiliensis: IV. Distribution and abundance of sardine larvae. Bol Do Inst Ocean. 26(2):219–247. https://doi.org/10.1590/s0373-55241977000200002. (PMID: 10.1590/s0373-55241977000200002)
      Matsuura Y (1975) A study of the life history of Brazilian sardine, Sardinella brasiliensis: II. spawning in 1970 and 1971. Bol Do Inst Ocean. 24:01–16. https://doi.org/10.1590/s0373-55241975000100001. (PMID: 10.1590/s0373-55241975000100001)
      Meulenbroek P, Drexler S, Huemer D, Gruber S, Krumböck S, Rauch P, Waidbacher H (2018) Species-specific fish larvae drift in anthropogenically constructed riparian zones on the Vienna impoundment of the River Danube, Austria Species occurrence, frequencies, and seasonal patterns based on DNA barcoding. River Res Appl 34(7):854–862. (PMID: 10.1002/rra.3303)
      Meulenbroek P, Drexler S, Nagel C, Geistler M, Waidbacher H (2018) The importance of a constructed near-nature-like Danube fish by-pass as a lifecycle fish habitat for spawning, nurseries, growing and feeding: a long-term view with remarks on management. Mar Freshw Res 69(12):1857–1869. (PMID: 10.1071/MF18121)
      Meyer CP, Paulay G (2005) DNA barcoding: Error rates based on comprehensive sampling. PLoS Biol 3(12):1–10. https://doi.org/10.1371/journal.pbio.0030422. (PMID: 10.1371/journal.pbio.0030422)
      Miller BS, Kendall AW (2009) Early Life History of Marine Fishes, 1st edn. University of California Press, Berkeley. (PMID: 10.1525/california/9780520249721.001.0001)
      Miranda-Chumacero G, Mariac C, Duponchelle F, Painter L, Wallace R, Cochonneau G et al (2020) Threatened fish spawning area revealed by specific metabarcoding identification of eggs and larvae in the Beni River, upper Amazon. Glob Ecol Conserv. https://doi.org/10.1016/j.gecco.2020.e01309. (PMID: 10.1016/j.gecco.2020.e01309)
      Moura T, Silva MC, Figueiredo I, Neves A, Muñoz PD, Coelho MM et al (2008) Molecular barcoding of north-east Atlantic deep-water sharks: Species identification and application to fisheries management and conservation. Mar Freshw Res 59(3):214–223. https://doi.org/10.1071/MF07192. (PMID: 10.1071/MF07192)
      Myoung SH, Kwak SN, Kim JK, Williamson JE (2021) Effect of freshwater discharge from Namgang Dam on ichthyoplankton assemblage structure in Jinju Bay. Korea Aquatic Living Resources 34:18. (PMID: 10.1051/alr/2021017)
      Nagel C, Mueller M, Pander J, Stoeckle BC, Kuehn R, Geist J (2021) Going with the flow: Spatio-temporal drift patterns of larval fish in a large alpine river. Freshw Biol 66(9):1765–1781. (PMID: 10.1111/fwb.13790)
      Nakatani K. Estudo do ictioplâncton no reservatório de Itaipu (rio Paraná - Brasil): levantamento das áreas de desova.
      Nakatani K, Agostinho AA, Baumgartner G, Bialetzki A, Sanches PV, Makrakis MC, et al. Ovos e larvas de peixes de água doce: desenvolvimento e manual de identificação. 1st ed. Maringá: Eduem; 2001.
      Nakatani K, Baumgartner G, Latini JD (1998) Morphological description of larvae of the Mapará Hypophthalmus edentatus (Spix) (Osteichthyes, Hypophthalmidae) in the Itaipu reservoir (Parana River, Brazil). Rev Bras Zool 15(3):687–696. https://doi.org/10.1590/s0101-81751998000300013. (PMID: 10.1590/s0101-81751998000300013)
      Nobile AB, Freitas-Souza D, Ruiz-Ruano FJ, Nobile MLMO, Costa GO, de Lima FP et al (2019) DNA metabarcoding of Neotropical ichthyoplankton: Enabling high accuracy with lower cost. Metabarcoding Metagenomics 3:69–76. https://doi.org/10.3897/mbmg.3.35060. (PMID: 10.3897/mbmg.3.35060)
      Nonaka A, Milisen JW, Mundy BC, Johnson GD (2021) Blackwater diving: an exciting window into the planktonic arena and its potential to enhance the quality of larval fish collections. Ichthyol Herpetol 109(1):138–156. (PMID: 10.1643/i2019318)
      Orsi ML, Almeida FS de, Swarça AC, Claro-García A, Vianna NC, Garcia DAZ, et al. Ovos, larvas e juvenis dos peixes da Bacia do Rio Paranapanema uma avaliação para a conservação. Assis - SP: Triunfal Gráfica & Editora; 2016.
      Ortiz M de F. Validação do DNA Barcode como identificador de espécies: um estudo de ampla amostragem com o gênero Pseudoplatystoma (Siluriformes, Pimelodidae) na Amazônia.
      Pandey PK, Singh YS, Tripathy PS, Kumar R, Abujam SK, Parhi J (2020) DNA barcoding and phylogenetics of freshwater fish fauna of Ranganadi River, Arunachal Pradesh. Gene 754:144860. https://doi.org/10.1016/j.gene.2020.144860. (PMID: 10.1016/j.gene.2020.144860)
      Panprommin D, Soontornprasit K, Tuncharoen S, Iamchuen N (2020) The utility of DNA barcoding for the species identification of larval fish in the lower ing river, Thailand. Turk J Fish Aquat Sci 20(9):671–679. (PMID: 10.4194/1303-2712-v20_9_02)
      Panprommin D, Soontornprasit K, Tuncharoen S, Iamchuen N (2021) Efficacy of DNA barcoding for the identification of larval fish species in the Upper and Middle Ing River. Thailand Gene Reports 23:101057. (PMID: 10.1016/j.genrep.2021.101057)
      Pappalardo AM, Cuttitta A, Sardella A, Musco M, Maggio T, Patti B et al (2015) DNA barcoding and COI sequence variation in Mediterranean lanternfishes larvae. Hydrobiologia 749(1):155–167. https://doi.org/10.1007/s10750-014-2161-5. (PMID: 10.1007/s10750-014-2161-5)
      Pavan-Kumar A, Gireesh-Babu P, Lakra WS (2015) DNA Metabacoding: a new approach for rapid biodiversity assessment. J Cell Sci Mol Biol 2(1):111.
      Pegg GG, Sinclair B, Briskey L, Aspden WJ (2006) MtDNA barcode identification of fish larvae in the southern Great Barrier Reef. Australia Sci Mar 70(SUPPL. 2):7–12. https://doi.org/10.3989/scimar.2006.70s27. (PMID: 10.3989/scimar.2006.70s27)
      Pulido JMM. Identificación morfológica y molecular de especies de larvas de peces del Golfo de México.
      Puncher GN, Arrizabalaga H, Alemany F, Cariani A, Oray IK, Karakulak FS, Tinti F (2015) Molecular identification of Atlantic Bluefin tuna (Thunnus thynnus, Scombridae) larvae and development of a DNA character-based identification key for mediterranean scombrids. PLoS ONE 10(7):e0130407. (PMID: 10.1371/journal.pone.0130407)
      Ram R, Pavan-Kumar A, Jaiswar AK, Gireesh-Babu P, Krishna G, Chaudhari A (2020) Identification of fish and shellfish larvae from mangroves using DNA barcodes. J Coast Res 36(5):1106–1110. https://doi.org/10.2112/JCOASTRES-D-19-00172.1. (PMID: 10.2112/JCOASTRES-D-19-00172.1)
      Ratcliffe FC, Uren Webster TM, Rodriguez-Barreto D, O’Rorke R, Garcia de Leaniz C, Consuegra S (2021) Quantitative assessment of fish larvae community composition in spawning areas using metabarcoding of bulk samples. Ecol Appl 31(3):1–10. (PMID: 10.1002/eap.2284)
      Rathnasuriya MIG, Mateos-Rivera A, Bandara AGGC, Skern-Mauritzen R, Jayasinghe RPPK, Krakstad JO, Dalpadado P (2019) DNA barcoding confirms the first record of a Desmodema polystictum (Ogilby, 1898) egg and all-time high adult catches in the Indian Ocean. Marine Biodiv Records 12(1):1–7. (PMID: 10.1186/s41200-019-0180-7)
      Ratnasingham S, Hebert PDN (2013) A DNA-based registry for all animal species: The Barcode Index Number (BIN) system. PLoS ONE. https://doi.org/10.1371/journal.pone.0066213. (PMID: 10.1371/journal.pone.0066213)
      Rawlings TA, Collins TM (2001) A major mitochondrial gene rearrangement among closely related species. Mol Biol Evol 18(8):1604–1609. (PMID: 10.1093/oxfordjournals.molbev.a003949)
      Ré PM a B. Ictioplâncton estuarino da Península Ibérica - Guia de identificação dos ovos e estados larvares planctónicos. Lisboa: 1999.
      Reis RE et al (2016) Fish biodiversity and conservation in South America. J Fish Biol 89:12–47. (PMID: 10.1111/jfb.13016)
      Reynalte-Tataje DA, Agostinho AA, Bialetzki A (2013) Temporal and spatial distributions of the fish larval assemblages of the Ivinheima River sub-basin (Brazil). Environ Biol Fishes 96(7):811–822. https://doi.org/10.1007/s10641-012-0073-7. (PMID: 10.1007/s10641-012-0073-7)
      Reynalte-Tataje DA, Nakatani K, Fernandes R, Agostinho AA, Bialetzki A (2011) Temporal distribution of ichthyoplankton in the Ivinhema River (Mato Grosso do Sul State/ Brazil): Influence of environmental variables. Neotrop Ichthyol 9(2):427–436. https://doi.org/10.1590/S1679-62252011005000017. (PMID: 10.1590/S1679-62252011005000017)
      Richardson DE, Vanwye JD, Exum AM, Cowen RK, Crawford DL (2007) High-throughput species identification: From DNA isolation to bioinformatics: Technical article. Mol Ecol Notes 7(2):199–207. https://doi.org/10.1111/j.1471-8286.2006.01620.x. (PMID: 10.1111/j.1471-8286.2006.01620.x)
      Rocha PS, Bernecker C, Strecker R, Mariani CF, Pompĉo MLM, Storch V et al (2011) Sediment-contact fish embryo toxicity assay with Danio rerio to assess particle-bound pollutants in the Tietĉ River Basin (São Paulo, Brazil). Ecotoxicol Environ Saf 74(7):1951–1959. https://doi.org/10.1016/j.ecoenv.2011.07.009. (PMID: 10.1016/j.ecoenv.2011.07.009)
      Rodrigues RV, Miranda-Filho KC, Gusmão EP, Moreira CB, Romano LA, Sampaio LA (2010) Deleterious effects of water-soluble fraction of petroleum, diesel and gasoline on marine pejerrey Odontesthes argentinensis larvae. Sci Total Environ 408(9):2054–2059. https://doi.org/10.1016/j.scitotenv.2010.01.063. (PMID: 10.1016/j.scitotenv.2010.01.063)
      Rodrigues T, Hilsdorf AWS, Pimenta EG, de Amorim AF (2017) Ocorrência e identificação de larvas de istiophoridae e ovos de xiphiidae na costa sudeste Brasileira. Bol Do Inst Pesca 43(1):78–86. https://doi.org/10.20950/1678-2305.2017v43n1p78. (PMID: 10.20950/1678-2305.2017v43n1p78)
      Sanches PV, Nakatani K, Bialetzki A, Baumgartner G, Gomes LC, Luiz EA (2006) Flow regulation by Dams affecting ichthyoplankton: The case of the Porto Primavera Dam, Paraná River. Brazil River Res Appl 22(5):555–565. https://doi.org/10.1002/rra.922. (PMID: 10.1002/rra.922)
      Silva-Segundo CA, Funes-Rodríguez R, Gómez-Gutiérrez J, Gallegos-Simental G, Hernández-Trujillo S, Blanco-Jarvio A (2021) DNA barcoding and taxonomic validation of Caranx spp. larvae. J Marine Biol Association United Kingdom 101(2):399–407. (PMID: 10.1017/S0025315421000205)
      Sloterdijk H, Brehmer P, Sadio O, Müller H, Döring J, Ekau W (2017) Composition and structure of the larval fish community related to environmental parameters in a tropical estuary impacted by climate change. Estuar Coast Shelf Sci 197:10–26. (PMID: 10.1016/j.ecss.2017.08.003)
      Steinke D, Connell AD, Hebert PD (2016) Linking adults and immatures of South African marine fishes. Genome 59(11):959–967. (PMID: 10.1139/gen-2015-0212)
      Suzuki FM, Pompeu PS (2016) Influence of abiotic factors on ichthyoplankton occurrence in stretches with and without dams in the upper Grande River basin, south-eastern Brazil. Fish Manag Ecol 23(2):99–108. https://doi.org/10.1111/fme.12159. (PMID: 10.1111/fme.12159)
      Taberlet P, Coissac E, Pompanon F, Brochmann C, Willerslec E (2012) Towards next-generation biodiversity assessment using DNA metabarcoding - TABERLET - 2012 - Molecular Ecology - Wiley Online Library. Mol Ecol 21:2045–2050. (PMID: 10.1111/j.1365-294X.2012.05470.x)
      Thirumaraiselvi R, Sourin DAS, Ramanadevi V, Thangaraj M (2015) MtDNA barcode identification of finfish larvae from Vellar estuary, Tamilnadu. India Notulae Scientia Biologicae 7(1):16–19. (PMID: 10.15835/nsb719478)
      Uh-Navarrete AE, Villegas-Sánchez CA, Cohuo-Colli JA, Ortíz-Moreno ÁO, Valdez-Moreno M (2021) Identifying early stages of freshwater fish with DNA barcodes in several sinkholes and lagoons from the east of Yucatan Peninsula, Mexico. Diversity 13(11):513. (PMID: 10.3390/d13110513)
      Valdez-Moreno M, Vásquez-Yeomans L, Elías-Gutírrez M, Ivanova NV, Hebert PDN (2010) Using DNA barcode to connect adults and early life stages of marine fishes from the Yucatan Peninsula, Mexico: Potential in fisheries management. Mar Freshw Res 61(6):665–671. https://doi.org/10.1071/MF09222. (PMID: 10.1071/MF09222)
      Wang, C., Wu, Q., Wang, Y., Chen, X., Sun, R., Zhang, Z., & Xiang, P. Species identification of larval fish in Hawaiian waters using DNA barcoding. 2021.
      Ward RD, Hanner R, Hebert PDN (2009) The campaign to DNA barcode all fishes. FISH-BOL J Fish Biol 74(2):329–356. https://doi.org/10.1111/j.1095-8649.2008.02080.x. (PMID: 10.1111/j.1095-8649.2008.02080.x)
      Ward RD, Zemlak TS, Innes BH, Last PR, Hebert PDN (2005) DNA barcoding Australia’s fish species. Philos Trans R Soc B Biol Sci 360(1462):1847–1857. https://doi.org/10.1098/rstb.2005.1716. (PMID: 10.1098/rstb.2005.1716)
      Wibowo A, Sloterdijk H (2015) Identifying Sumatran peat swamp fish larvae through DNA barcoding, evidence of complete life history pattern. Procedia Chem 14:76–84. (PMID: 10.1016/j.proche.2015.03.012)
      Wibowo A, Panggabean AS, Zamroni A, Priatna A, Yusuf HN (2018) Using DNA barcode to improve the identification of marine fish larvae, case study coastal water near Jakarta and Banda Sea. Indonesia Indonesian Fisheries Res J 24(1):23–30.
      Wibowo A, Wahlberg N, Vasemägi A (2016) DNA barcoding of fish larvae reveals uncharacterised biodiversity in tropical peat swamps of New Guinea. Indonesia Marine Freshwater Res 68(6):1079–1087. (PMID: 10.1071/MF16078)
      Yamazaki N, Ueshima R, Terrett JA, Yokobori SI, Kaifu M, Segawa R et al (1997) Evolution of pulmonate gastropod mitochondrial genomes: Comparisons of gene organizations of Euhadra, Cepaea and Albinaria and implications of unusual tRNA secondary structures. Genetics 145(3):749–758. https://doi.org/10.1093/genetics/145.3.749. (PMID: 10.1093/genetics/145.3.749)
      Bin ZJ, Hanner R (2011) DNA barcoding is a useful tool for the identification of marine fishes from Japan. Biochem Syst Ecol 39(1):31–42. (PMID: 10.1016/j.bse.2010.12.017)
      Zheng YJ, Li XQ, Yang ZX, Cai WX, Lou QS, Tao W (2021) The identification of fish eggs of two species, the ovate sole Solea ovata and black porgy Acanthopagrus schlegelii. J Fish Biol 99(5):1746–1751. (PMID: 10.1111/jfb.14854)
      Ziober SR, Reynalte-Tataje DA, Zaniboni-Filho E (2015) The importance of a conservation unit in a subtropical basin for fish spawning and growth. Environ Biol Fishes 98(2):725–737. https://doi.org/10.1007/s10641-014-0307-y. (PMID: 10.1007/s10641-014-0307-y)
    • Contributed Indexing:
      Keywords: Biodiversity; COI; DNA barcode; HTS; Ichthyoplankton
    • Accession Number:
      9007-49-2 (DNA)
    • Publication Date:
      Date Created: 20221123 Date Completed: 20230202 Latest Revision: 20230902
    • Publication Date:
      20240104
    • Accession Number:
      10.1007/s11033-022-08091-9
    • Accession Number:
      36418775