Archaeal Community Revealed by 16s rRNA and Fluorescence in situ Hybridization in a Sulphuric Hydrothermal Hot Spring, Northern Taiwan

Ng, Chang-Chai; Chang, Chen-Chin; Shyu, Yuan‐Tay

doi:10.1007/s11274-004-6819-4

Cited by 8 publications

(5 citation statements)

References 38 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The phylotypes in TRG-III were related to environmental clones recovered from acidic wetlands, river water and a mine (Jennifer et al, 2002;Garcia-Moyano et al, 2007;Rowe et al, 2007). TRG-IV includes environmental clones from terrestrial hot springs (Jackson et al, 2001;Ng et al, 2005;Spear et al, 2005). These uncultured phylotypes in the TRGs detected in the present study may represent acidophiles, as supported by the environmental characteristics of the present study field and other environments where related clones were detected, and the physiology of the cultured members of the Thermoplasmata (Reysenbach, 2001).…”

Section: Archaea In Solfataric Mudmentioning

confidence: 99%

Archaeal diversity in a terrestrial acidic spring field revealed by a novel PCR primer targeting archaeal 16S rRNA genes

Kato

Itoh

Yamagishi

2011

FEMS Microbiology Letters

View full text Add to dashboard Cite

The phylogenetic diversity of archaeal 16S rRNA genes in a thermoacidic spring field of Ohwakudani, Hakone, Japan, was investigated by PCR-based analysis using a novel Archaea-specific primer designed in the present study. Clone libraries of archaeal 16S rRNA genes were constructed from hot water (78 °C) and mud (28 °C) samples by PCR using a newly designed forward primer and a previously reported forward primer with reverse primers. Most phylotypes found in the libraries from the hot water sample were related to cultured (hyper)thermophiles. The phylotypes and their detection frequencies from the hot water sample were similar for the libraries amplified with the two different primer sets. In contrast, phylotypes having a low similarity (<95%) to cultured Archaea were found in the libraries from the mud sample. Some of the phylotypes were relatively close to members of Thermoplasmata (80-93% similarity) and the others were not clearly affiliated with Crenarchaeota and Euryarchaeota, but related to Thaumarchaeota and Korarchaeota. The phylotypes and their detection frequencies were significantly different between the two libraries of the mud sample. Our results from the PCR-based analysis using the redesigned primer suggest that more diverse, uncultured Archaea are present in acidic environments at a low temperature than previously recognized.

show abstract

Section: Archaea In Solfataric Mudmentioning

confidence: 99%

Archaeal diversity in a terrestrial acidic spring field revealed by a novel PCR primer targeting archaeal 16S rRNA genes

Kato

Itoh

Yamagishi

2011

FEMS Microbiology Letters

View full text Add to dashboard Cite

show abstract

“…Therefore, the shift in the microbial community originated from natural factors. However, other studies (Ng et al, 2005;Huang and Lo, 2015) conducted at different locations from our sampling sites in Yangmingshan National Park did not avoid the effects of anthropogenic activities on soil and water. Moreover, intense human activities, such as farming and building construction, continue to exist.…”

Section: Discussionmentioning

confidence: 94%

“…Although the volcanic soils examined in previous studies may have different characteristics, their microbial community structures were all shaped by particular volcanic soil variables. A previous study was performed on the archaeal community in Yangmingshan National Park using TRE-RFLP, FISH, and microscopic observations ( Ng et al , 2005 ). However, the present study is one of the first to use next-generation sequencing (NGS) to reveal the bacterial community structure and diversity in volcanic soil.…”

mentioning

confidence: 99%

Environmental Variables Including Heavy Metals Significantly Shape the Soil Bacterial Community Structure in the Tatun Volcano Group, Northern Taiwan

Anderson

Song

2022

Microb. Environ.

View full text Add to dashboard Cite

Recent studies suggested the presence of magma chambers from the Tatun volcano group under northern Taiwan's surface, the result of episodic volcanism for 0.2-2.8 million years. However, the microbial community in volcanic soil has not yet been characterized. Therefore, the present study investigated the spatial distribution of microbial communities and their relationships with environmental variables, including heavy metals. Next-generation sequencing was used to analyze the microbial community structures in three areas with different land uses: Lengshuikeng (recreational area), Zhuzihu (agricultural area), and Huangzuishan (conservation area). High contents of environmental factors, such as nitrogen (0.46-1.14%) and phosphorus (2.01-13.88 ppm), were detected. Large concentrations of heavy metals, such as copper (55.90-127.60 ppm) and zinc (36.13-147.73 ppm), were found among the three sites, whereas those of lead (83.13 ppm) and chromium (48.33 ppm) were higher in the Zhuzihu area. The most prevalent phylum across all sites was Proteobacteria, followed by Actinobacteria, Acidobacteria, and Chloroflexi, while the most abundant bacterial species was Koribacteraceae: NA_01, followed by Cyanobacteria: NA. A network analysis showed that Koribacteracea: NA_01 positively correlated with bacterial groups, including Flavisolibacter sp., Oxalobacteraceae: NA, and Actinomycetales: NA_01. Based on Shannon and Simpson's diversity indices, the diversity of bacteria was significantly less in the Huangzuishan area than in the Lengshuikeng and Zhuzihu areas. Bacterial assemblages also significantly differed (P<0.05) among the three sites. The present results provide clear evidence to show that environmental variables, including heavy metals, are key factors affecting the bacterial community structure in volcanic soil.

show abstract

“…In this study, FISH analysis was conducted using domainand phylum-specific probes that target the 16S rRNA to determine if other phyla are present and to obtain a (Ng et al 2005), and characterization of many unculturable novel archaeal lineages (Schleper et al 1995). Hybridization with the Archaea-specific ARCH915 (Fig.…”

Section: Fluorescence In Situ Hybridizationmentioning

confidence: 99%

Microbial community of a volcanic mudspring in the Philippines as revealed by 16S rDNA sequence analysis and fluorescence in situ hybridization

Lantican

Diaz

Cantera

et al. 2010

World J Microbiol Biotechnol

View full text Add to dashboard Cite

Mt. Makiling Mudspring in Laguna, Philippines is a thermophilic, acidophilic environment that previously has been shown to harbor novel microorganisms. We assessed the microbial community that exists at this volcanic mudspring using 16S rRNA-based approaches. DNA was extracted from solfataric soils and sediments taken from Mudspring. The 16S rDNA was PCR amplified using universal (519F-1392R) and archaeal-specific (23FPL-1391R) primer pairs, cloned, and sequenced. Phylogenetic analysis of the cloned 16S rDNA showed that eleven clones clustered with, and therefore related to Sulfolobus tokodaii 7 and two clones clustered with S. solfataricu, S. shibatae and S. islandicus. Three clone sequences were related to those found in thermophilic chalcopyrite (CuFeS 2 ), a copper sulfuric ore from bioleaching reactors. One clone had low similarity (95% identity) with uncultured archaeon clone KOZ184. Fluorescence in situ hybridization (FISH) analysis revealed that about 71% of the microbial community present in the Mudspring belong to domain Archaea of which 63% were Crenarchaeota and 8% were Euryarchaeota. Seventeen percent (17%) of the population consisted of bacteria as indicated by the positive hybridization with the BACT338 probe, and the remaining 12% are unidentified. This study is the first attempt to use molecular techniques in any environment in the Philippines.

show abstract

Archaeal Community Revealed by 16s rRNA and Fluorescence in situ Hybridization in a Sulphuric Hydrothermal Hot Spring, Northern Taiwan

Cited by 8 publications

References 38 publications

Archaeal diversity in a terrestrial acidic spring field revealed by a novel PCR primer targeting archaeal 16S rRNA genes

Archaeal diversity in a terrestrial acidic spring field revealed by a novel PCR primer targeting archaeal 16S rRNA genes

Environmental Variables Including Heavy Metals Significantly Shape the Soil Bacterial Community Structure in the Tatun Volcano Group, Northern Taiwan

Microbial community of a volcanic mudspring in the Philippines as revealed by 16S rDNA sequence analysis and fluorescence in situ hybridization

Contact Info

Product

Resources

About