Comprehensive Insights Into Composition, Metabolic Potentials, and Interactions Among Archaeal, Bacterial, and Viral Assemblages in Meromictic Lake Shunet in Siberia

Тип публикации: статья из журнала

Год издания: 2018

Идентификатор DOI: 10.3389/fmicb.2018.01763

Ключевые слова: Lake Shunet, metagenomics, archaeal, bacterial and viral assemblages, meromictic lake

Аннотация: Microorganisms are critical to maintaining stratified biogeochemical characteristics in meromictic lakes; however, their community composition and potential roles in nutrient cycling are not thoroughly described. Both metagenomics and metaviromics were used to determine the composition and capacity of archaea, bacteria, and viruses along the water column in the landlocked meromictic Lake Shunet in Siberia. Deep sequencing of 265 Gb and high-quality assembly revealed a near-complete genome corresponding to Nonlabens sp. sh3vir. in a viral sample and 38 bacterial bins (0.2-5.3 Mb each). The mixolimnion (3.0 m) had the most diverse archaeal, bacterial, and viral communities, followed by the monimolimnion (5.5 m) and chemocline (5.0 m). The bacterial and archaeal communities were dominated by Thiocapsa and Methanococcoides, respectively, whereas the viral community was dominated by Siphoviridae. The archaeal and bacterial assemblages and the associated energy metabolism were significantly related to the various depths, in accordance with the stratification of physicochemical parameters. Reconstructed elemental nutrient cycles of the three layers were interconnected, including co-occurrence of denitrification and nitrogen fixation in each layer and involved unique processes due to specific biogeochemical properties at the respective depths. According to the gene annotation, several pre-dominant yet unknown and uncultured bacteria also play potentially important roles in nutrient cycling. Reciprocal BLAST analysis revealed that the viruses were specific to the host archaea and bacteria in the mixolimnion. This study provides insights into the bacterial, archaeal, and viral assemblages and the corresponding capacity potentials in Lake Shunet, one of the three meromictic lakes in central Asia. Lake Shunet was determined to harbor specific and diverse viral, bacterial, and archaeal communities that intimately interacted, revealing patterns shaped by indigenous physicochemical parameters.

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Издание

Журнал: FRONTIERS IN MICROBIOLOGY

Выпуск журнала: Vol. 9

ISSN журнала: 1664302X

Место издания: LAUSANNE

Издатель: FRONTIERS MEDIA SA

Авторы

  • Wu Yu-Ting (Natl Pingtung Univ Sci & Technol, Dept Forestry, Neipu, Taiwan; Acad Sinica, Biodivers Res Ctr, Taipei, Taiwan)
  • Yang Cheng-Yu (Acad Sinica, Biodivers Res Ctr, Taipei, Taiwan)
  • Chiang Pei-Wen (Acad Sinica, Biodivers Res Ctr, Taipei, Taiwan)
  • Tseng Ching-Hung (Acad Sinica, Biodivers Res Ctr, Taipei, Taiwan; Germark Biotechnol Co Ltd, Taichung, Taiwan)
  • Chiu Hsiu-Hui (Acad Sinica, Biodivers Res Ctr, Taipei, Taiwan)
  • Saeed Isaam (Univ Melbourne, Melbourne Sch Engn, Optimisat & Pattern Recognit Grp, Melbourne, Vic, Australia)
  • Baatar Bayanmunkh (Acad Sinica, Biodivers Res Ctr, Taipei, Taiwan; Acad Sinica, Taiwan Int Grad Program, Mol & Biol Agr Sci, Taipei, Taiwan; Natl Chung Hsing Univ, Grad Inst Biotechnol, Dept Life Sci, Taichung, Taiwan)
  • Rogozin Denis (Russian Acad Sci, Inst Biophys, Siberian Div, Krasnoyarsk, Russia; Siberian Fed Univ, Krasnoyarsk, Russia)
  • Halgamuge Saman (Univ Melbourne, Melbourne Sch Engn, Optimisat & Pattern Recognit Grp, Melbourne, Vic, Australia)
  • Degermendzhi Andrei (Russian Acad Sci, Inst Biophys, Siberian Div, Krasnoyarsk, Russia)
  • Tang Sen-Lin (Acad Sinica, Biodivers Res Ctr, Taipei, Taiwan; Acad Sinica, Taiwan Int Grad Program, Mol & Biol Agr Sci, Taipei, Taiwan; Natl Chung Hsing Univ, Grad Inst Biotechnol, Dept Life Sci, Taichung, Taiwan)

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