Genome-resolved metagenomics analysis provides insights into the ecological role of Thaumarchaeota in the Amazon River and its plume

BMC Microbiology

article

Pinto, Otávio H. B.¹  Silva, Thais F.¹  Vizzotto, Carla S.¹  Santana, Renata H.³  Lopes, Fabyano A. C.⁴  Silva, Bruno S.⁵  Thompson, Fabiano L.⁵  Kruger, Ricardo H.¹ 

[1] Department of Enzymology, Institute of Biological Sciences, University of Brasília;Department of Civil and Environmental Engineering, University of Brasília;Federal Institute of Brasília;Laboratory of Microbiology, Federal University of Tocantins;Department of Genetics, Institute of Biology, Federal University of Rio de Janeiro

关键词: Thaumarchaeota;    Amazon River;    Amazon River plume;    Metagenome-assembled genome;   

DOI  :  10.1186/s12866-020-1698-x

学科分类：放射科、核医学、医学影像

来源: BioMed Central

【 摘 要 】

Thaumarchaeota are abundant in the Amazon River, where they are the only ammonia-oxidizing archaea. Despite the importance of Thaumarchaeota, little is known about their physiology, mainly because few isolates are available for study. Therefore, information about Thaumarchaeota was obtained primarily from genomic studies. The aim of this study was to investigate the ecological roles of Thaumarchaeota in the Amazon River and the Amazon River plume. The archaeal community of the shallow in Amazon River and its plume is dominated by Thaumarchaeota lineages from group 1.1a, which are mainly affiliated to Candidatus Nitrosotenuis uzonensis, members of order Nitrosopumilales, Candidatus Nitrosoarchaeum, and Candidatus Nitrosopelagicus sp. While Thaumarchaeota sequences have decreased their relative abundance in the plume, Candidatus Nitrosopelagicus has increased. One genome was recovered from metagenomic data of the Amazon River (ThauR71 [1.05 Mpb]), and two from metagenomic data of the Amazon River plume (ThauP25 [0.94 Mpb] and ThauP41 [1.26 Mpb]). Phylogenetic analysis placed all three Amazon genome bins in Thaumarchaeota Group 1.1a. The annotation revealed that most genes are assigned to the COG subcategory coenzyme transport and metabolism. All three genomes contain genes involved in the hydroxypropionate/hydroxybutyrate cycle, glycolysis, tricarboxylic acid cycle, oxidative phosphorylation. However, ammonia-monooxygenase genes were detected only in ThauP41 and ThauR71. Glycoside hydrolases and auxiliary activities genes were detected only in ThauP25. Our data indicate that Amazon River is a source of Thaumarchaeota, where these organisms are important for primary production, vitamin production, and nitrification.

【 授权许可】

CC BY|CC0