著者
Tomoko Mihara Hitoshi Koyano Pascal Hingamp Nigel Grimsley Susumu Goto Hiroyuki Ogata
出版者
Japanese Society of Microbial Ecology · The Japanese Society of Soil Microbiology
雑誌
Microbes and Environments (ISSN:13426311)
巻号頁・発行日
pp.ME17203, (Released:2018-05-25)
被引用文献数
80

Since the discovery of the giant mimivirus, evolutionarily related viruses have been isolated or identified from various environments. Phylogenetic analyses of this group of viruses, tentatively referred to as the family “Megaviridae”, suggest that it has an ancient origin that may predate the emergence of major eukaryotic lineages. Environmental genomics has since revealed that Megaviridae represents one of the most abundant and diverse groups of viruses in the ocean. In the present study, we compared the taxon richness and phylogenetic diversity of Megaviridae, Bacteria, and Archaea using DNA-dependent RNA polymerase as a common marker gene. By leveraging existing microbial metagenomic data, we found higher richness and phylogenetic diversity in this single viral family than in the two prokaryotic domains. We also obtained results showing that the evolutionary rate alone cannot account for the observed high diversity of Megaviridae lineages. These results suggest that the Megaviridae family has a deep co-evolutionary history with diverse marine protists since the early “Big-Bang” radiation of the eukaryotic tree of life.
著者
Yusuke Okazaki Tuyen Thi Nguyen Arisa Nishihara Hisashi Endo Hiroyuki Ogata Shin-ichi Nakano Hideyuki Tamaki
出版者
Japanese Society of Microbial Ecology / Japanese Society of Soil Microbiology / Taiwan Society of Microbial Ecology / Japanese Society of Plant Microbe Interactions / Japanese Society for Extremophiles
雑誌
Microbes and Environments (ISSN:13426311)
巻号頁・発行日
vol.38, no.1, pp.ME22102, 2023 (Released:2023-03-15)
参考文献数
20
被引用文献数
1

We herein propose a fast and easy DNA and RNA co-extraction method for environmental microbial samples. It combines bead beating and phenol-chloroform phase separation followed by the separation and purification of DNA and RNA using the Qiagen AllPrep DNA/RNA mini kit. With a handling time of ~3 h, our method simultaneously extracted high-quality DNA (peak size >10–15‍ ‍kb) and RNA (RNA integrity number >6) from lake bacterioplankton filtered samples. The method is also applicable to low-biomass samples (expected DNA or RNA yield <50‍ ‍ng) and eukaryotic microbial samples, providing an easy option for more versatile eco-genomic applications.
著者
Yanze Li Hisashi Endo Yasuhiro Gotoh Hiroyasu Watai Nana Ogawa Romain Blanc-Mathieu Takashi Yoshida Hiroyuki Ogata
出版者
Japanese Society of Microbial Ecology · The Japanese Society of Soil Microbiology
雑誌
Microbes and Environments (ISSN:13426311)
巻号頁・発行日
pp.ME19037, (Released:2019-08-03)
被引用文献数
11

Giant viruses of ‘Megaviridae’ have the ability to widely disperse around the globe. We herein examined ‘Megaviridae’ communities in four distinct aquatic environments (coastal and offshore seawater, brackish water, and hot spring freshwater), which are distantly located from each other (between 74 and 1,765 km), using a meta-barcoding method. We identified between 593 and 3,627 OTUs in each sample. Some OTUs were detected in all five samples tested as well as in many of the Tara Oceans metagenomes, suggesting the existence of viruses of this family in a wide range of habitats and the ability to circulate on the planet.