Comparison of 16S rRNA Gene Primers on Studying Microbial Community Composition in Bottom Water and Sediment of Artificial Reefs in Laoshan Bay, China

Fang, Guangjie; Yu, Haolin; Sheng, Huaxiang; Tang, Yanli; Liang, Zhenlin

doi:10.1007/s11802-022-4966-6

Cited by 1 publication

(1 citation statement)

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“…Per a prior study from Water and Sediment of Artificial Reefs in Laoshan Bay, China, primer V3-V4 found higher taxonomic assignments and microbial community compositions than primer V4. [16]. Furthermore, a ratio of 1.8 for pure DNA and 2.0 for pure RNA indicates optimal indicators of DNA or RNA quality appropriate for application in downstream processes [17].…”

Section: Dominance Index Calculation (D)mentioning

confidence: 99%

Actinobacteria diversity associated with sponge Amorphinopsis exacavans from Rancabuaya Beach, Garut, Indonesia

Srikandace,

Hapsari,

Andriani

2024

IOP Conf. Ser.: Earth Environ. Sci.

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Sponges are complex marine organisms known for their symbiotic relationships with various bacterial communities, which play structural and functional roles within the sponge holobiont. Actinobacteria have received much attention because of their potential pharmaceutical applications. This study examines Amorphinopsis excavans profile, distinguishing between endosymbionts and ectosymbionts. The microbial grouping was characterized using Next Generation Sequencing (NGS) anchored to the 16S rRNA marker. The results showed that Proteobacteria and Firmicutes dominated both the endosymbiont and ectosymbiont communities at the phylum level. The actinobacterial diversity index at the genus level in both communities was 2.77 and 3.11, indicating moderate to high diversity without a dominant genus. For the genus level, the evenness scores of 0.81 and 0.89 indicated a high population type within the bacterial community. Relative abundance revealed the three most prevalent genera in the endosymbiont community were Rothia, Thermoplyspora, and Thermomonospora. In contrast, Kocuria, Mycobacterium, and Bifidobacterium were the three most common genera of ectosymbionts. Leuconostoc citreum was the first species known to be associated with a sponge. This study is a developing metagenomic assessment of actinobacterial diversity in A. excavans, providing novel insights into the sponge’s complex microbial ecosystem.

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Section: Dominance Index Calculation (D)mentioning

confidence: 99%