Microbial community composition of the Danshui River estuary of Northern Taiwan and the practicality of the phylogenetic method in microbial barcoding

Pei Chun Liao, Bing Hong Huang, Shong Huang

Research output: Contribution to journalArticle

30 Citations (Scopus)

Abstract

In this study, the microbial community in a mangrove ecosystem was surveyed and used to test the eligibility of 16S rDNA library and neighbor-joining method for the purpose of estimating microbial composition. Genetic diversity (π) and four other diversity indices (Simpson's unbiased, Shannon-Wiener, Evenness, and Chao1 indices) were applied to estimate the adaptive lineages of microorganisms in the mangrove ecosystem. The results indicated that γ-Proteobacteria is the most diverse taxon, while the most abundant family is Rhodobacteraceae (α-Proteobacteria), followed by Comamonadaceae (β-Proteobacteria). This result may imply the existence of a graded distribution of microbial diversity across a spectrum of different salinities in the waterbody of this estuary ecosystem. Furthermore, at least 500-1,000 bps of the posterior portion of 16S rDNA is required as a marker to profile the microbial diversity in a microcosm of interest using phylogenetic methods, according to the results of our sliding window analyses for the measurements of π, consistency index, and retention index.

Original languageEnglish
Pages (from-to)497-507
Number of pages11
JournalMicrobial Ecology
Volume54
Issue number3
DOIs
Publication statusPublished - 2007 Oct 1

Fingerprint

Estuaries
barcoding
Taiwan
Rivers
community composition
Ecosystem
microbial communities
microbial community
Proteobacteria
estuaries
estuary
Ribosomal DNA
phylogenetics
mangrove
rivers
Rhodobacteraceae
ecosystems
ecosystem
phylogeny
Comamonadaceae

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Ecology
  • Soil Science

Cite this

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