Metagenomic analysis further extends the role of Chloroflexi in fundamental biogeochemical cycles

• Published in: Environmental research Vol. 209; p. 112888
• Main Authors: Narsing Rao, Manik Prabhu, Luo, Zhen-Hao, Dong, Zhou-Yan, Li, Qi, Liu, Bing-Bing, Guo, Shu-Xian, Nie, Guo-Xin, Li, Wen-Jun
• Format: Journal Article
• Language: English
• Published: Netherlands Elsevier Inc 01.06.2022
• Subjects: Anaerobic photosynthesis; Chloroflexi; Chloroflexi - genetics; Chloroflexi - metabolism; Genome comparison; Horizontal gene transfer; Metabolic Networks and Pathways; Metagenome; Metagenomics; Phylogeny; Chloroflexi; Anaerobic photosynthesis; Genome comparison; Horizontal gene transfer
• ISSN: 0013-9351; 1096-0953
• DOI: 10.1016/j.envres.2022.112888

Chloroflexi members are ubiquitous and have been extensively studied; however, the evolution and metabolic pathways of Chloroflexi members have long been debated. In the present study, the evolution and the metabolic potentials of 17 newly obtained Chloroflexi metagenome-assembled genomes (MAGs) were evaluated using genome and horizontal gene transfer (HGT) analysis. Taxonomic analysis suggests that the MAGs of the present study might be novel. One MAG encodes genes for anoxygenic phototrophy. The HGT analysis suggest that genes responsible for anoxygenic phototrophy in the MAG might have been transferred from Proteobacteria/Chlorobi. The evolution of anaerobic photosynthesis, which has long been questioned, has now been shown to be the result of HGT events. An incomplete Wood-Ljungdahl pathway (with missing genes metF, acsE, fdh, and acsA) was reported in Dehalococcoidetes members. In the present study, MAGs that were not the Dehalococcoidetes members encode genes acsA, acsB, metF and acsE. The genes responsible for sulfate reduction (sat, cysC and sir), dissimilatory sulfite reductase (dsrA and dsrB), and aerobic and anaerobic carbon monoxide oxidation (coxSML and cooSF) were detected in the present study MAGs. The present study expands our knowledge of the possible metabolic potentials of the phylum Chloroflexi and clarifies the evolution of anaerobic photosynthesis. •Role of horizontal gene transfer in the evolution of photosynthesis in Chloroflexi.•Wood–Ljungdahl pathway in non-Dehalococcoidetes clade.•Non-Thermomicrobia exhibiting nitrite oxidation.•Novel lineages of Chloroflexi.