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DNA barcoding of fish larvae reveals uncharacterised biodiversity in tropical peat swamps of New Guinea, Indonesia

Wibowo, Arif; Wahlberg, Niklas LU and Vasemägi, Anti (2017) In Marine and Freshwater Research 68(6). p.1079-1087
Abstract

The Indonesian archipelago, Borneo, Sumatra and West New Guinea (Papua), hosts half of the world's known tropical peat swamps, which support a significant proportion of the estimated biodiversity on Earth. However, several species groups that inhabit peat swamp environments remain poorly characterised and their biology, particularly during early life stages, is not well understood. In the present study we characterised larval and juvenile fish biodiversity, as well as spatial and temporal variability, in a pristine peat swamp environment of the River Kumbe in West New Guinea, Indonesia, based on analysis of the mitochondrial cytochrome-c oxidase subunit 1 (COI) sequence (501bp). Altogether, 10 fish species were detected in the peat... (More)

The Indonesian archipelago, Borneo, Sumatra and West New Guinea (Papua), hosts half of the world's known tropical peat swamps, which support a significant proportion of the estimated biodiversity on Earth. However, several species groups that inhabit peat swamp environments remain poorly characterised and their biology, particularly during early life stages, is not well understood. In the present study we characterised larval and juvenile fish biodiversity, as well as spatial and temporal variability, in a pristine peat swamp environment of the River Kumbe in West New Guinea, Indonesia, based on analysis of the mitochondrial cytochrome-c oxidase subunit 1 (COI) sequence (501bp). Altogether, 10 fish species were detected in the peat swamp habitat during the larval and juvenile stages, whereas 13 additional species were caught at older stages. Twelve species were detected only in a single site, whereas some species, such as the Western archerfish (Toxotes oligolepis) and Lorentz's grunter (Pingalla lorentzi), were observed in all sampling sites. The occurrence of fish larvae also varied temporally for several species. In contrast with many earlier DNA barcoding studies in fish, we were not able to determine the species identity for a large proportion of sequenced larvae (68%) because of the lack of corresponding COI sequences in the reference dataset. Unidentified sequences clustered into five separate monophyletic clades. Based on genetic divergences, the putative taxonomic origin for the five morphotypes are Atherinidae, Osteoglossidae, Terapontidae and Gobiidae.

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author
organization
publishing date
type
Contribution to journal
publication status
published
subject
in
Marine and Freshwater Research
volume
68
issue
6
pages
9 pages
publisher
CSIRO Publishing
external identifiers
  • scopus:85020060894
  • wos:000402414700008
ISSN
1323-1650
DOI
10.1071/MF16078
language
English
LU publication?
yes
id
2f646135-3c77-4e72-85a8-d1f7c89b0df2
date added to LUP
2017-06-30 10:38:45
date last changed
2017-09-18 11:37:05
@article{2f646135-3c77-4e72-85a8-d1f7c89b0df2,
  abstract     = {<p>The Indonesian archipelago, Borneo, Sumatra and West New Guinea (Papua), hosts half of the world's known tropical peat swamps, which support a significant proportion of the estimated biodiversity on Earth. However, several species groups that inhabit peat swamp environments remain poorly characterised and their biology, particularly during early life stages, is not well understood. In the present study we characterised larval and juvenile fish biodiversity, as well as spatial and temporal variability, in a pristine peat swamp environment of the River Kumbe in West New Guinea, Indonesia, based on analysis of the mitochondrial cytochrome-c oxidase subunit 1 (COI) sequence (501bp). Altogether, 10 fish species were detected in the peat swamp habitat during the larval and juvenile stages, whereas 13 additional species were caught at older stages. Twelve species were detected only in a single site, whereas some species, such as the Western archerfish (Toxotes oligolepis) and Lorentz's grunter (Pingalla lorentzi), were observed in all sampling sites. The occurrence of fish larvae also varied temporally for several species. In contrast with many earlier DNA barcoding studies in fish, we were not able to determine the species identity for a large proportion of sequenced larvae (68%) because of the lack of corresponding COI sequences in the reference dataset. Unidentified sequences clustered into five separate monophyletic clades. Based on genetic divergences, the putative taxonomic origin for the five morphotypes are Atherinidae, Osteoglossidae, Terapontidae and Gobiidae.</p>},
  author       = {Wibowo, Arif and Wahlberg, Niklas and Vasemägi, Anti},
  issn         = {1323-1650},
  language     = {eng},
  number       = {6},
  pages        = {1079--1087},
  publisher    = {CSIRO Publishing},
  series       = {Marine and Freshwater Research},
  title        = {DNA barcoding of fish larvae reveals uncharacterised biodiversity in tropical peat swamps of New Guinea, Indonesia},
  url          = {http://dx.doi.org/10.1071/MF16078},
  volume       = {68},
  year         = {2017},
}