Genetics


Publications
355

Genome Sequence of a New “ Candidatus ” Phylum “Dependentiae” Isolate from Chiba, Japan

Citation
Takemura (2022). Microbiology Resource Announcements 11 (2)
Names
Ca. Dependentiae
Abstract
Little is known about the bacterial phylum “ Candidatus Dependentiae,” because only three isolates have been reported. Here, I report the isolation and genome sequencing of a new member of this phylum, strain Noda2021. This is the fourth strain isolated from the phylum “ Candidatus Dependentiae.”

Candidatus Thiovulum sp. strain imperiosus: the largest free-living Epsilonproteobacteraeota Thiovulum strain lives in a marine mangrove environment

Citation
Sylvestre et al. (2022). Canadian Journal of Microbiology 68 (1)
Names
Ca. Thiovulum imperiosus
Abstract
A large (47.75 ± 3.56 µm in diameter) Thiovulum bacterial strain forming white veils is described from a marine mangrove ecosystem. High sulfide concentrations (up to 8 mM of H2S) were measured on sunken organic matter (wood/bone debris) under laboratory conditions. This sulfur-oxidizing bacterium colonized the organic matter, forming a white veil. According to conventional scanning electron microscope (SEM) observations, bacterial cells are ovoid and slightly motile by numerous small flagella

A catalogue of 1,167 genomes from the human gut archaeome

Citation
Chibani et al. (2021). Nature Microbiology 7 (1)
Names
“Methanarcanum” “Methanoprimaticola” “Methanoprimaticola hominis” “Methanarcanum hacksteinii”
Abstract
AbstractThe human gut microbiome plays an important role in health, but its archaeal diversity remains largely unexplored. In the present study, we report the analysis of 1,167 nonredundant archaeal genomes (608 high-quality genomes) recovered from human gastrointestinal tract, sampled across 24 countries and rural and urban populations. We identified previously undescribed taxa including 3 genera, 15 species and 52 strains. Based on distinct genomic features, we justify the split of the Methano

Molecular signatures between citrus and Candidatus Liberibacter asiaticus

Citation
Hu et al. (2021). PLOS Pathogens 17 (12)
Names
Ca. Liberibacter asiaticus Liberibacter
Abstract
Citrus Huanglongbing (HLB), also known as citrus greening, is one of the most devastating citrus diseases worldwide. Candidatus Liberibacter asiaticus (CLas) is the most prevalent strain associated with HLB, which is yet to be cultured in vitro. None of the commercial citrus cultivars are resistant to HLB. The pathosystem of Ca. Liberibacter is complex and remains a mystery. In this review, we focus on the recent progress in genomic research on the pathogen, the interaction of host and CLas, and

Full Genome Sequence of a Methanomassiliicoccales Representative Enriched from Peat Soil

Citation
Weil et al. (2021). Microbiology Resource Announcements 10 (48)
Names
“Methanogranum greifswaldense”
Abstract
The full genome of a Methanomassiliicoccales strain, U3.2.1, was obtained from enrichment cultures of percolation fen peat soil under methanogenic conditions, with methanol and hydrogen as the electron acceptor and donor, respectively. Metagenomic assembly of combined long-read and short-read sequences resulted in a 1.51-Mbp circular genome.

Draft Genome Sequence of Schaalia odontolytica Strain ORNL0103, a Basibiont of “ Candidatus Saccharibacteria” HMT352

Citation
Podar et al. (2021). Microbiology Resource Announcements 10 (44)
Names
Ca. Saccharibacteria
Abstract
Here, we report the draft, nearly complete genome sequence of the human oral actinobacterium Schaalia odontolytica strain ORNL0103, which was isolated in association with “ Candidatus Saccharibacteria” HMT352 strain ORNL0105. The genome was sequenced using a combination of Pacific Biosciences and Illumina platforms and encodes 1,948 proteins and 60 RNAs.

Metagenome Assembly and Metagenome-Assembled Genome of “ Candidatus Aramenus sulfurataquae” from Thermal Sediments from the Los Azufres Volcanic Complex

Citation
Marín-Paredes et al. (2021). Microbiology Resource Announcements 10 (39)
Names
“Aramenus sulfurataquae”
Abstract
A plethora of hot springs are found at the Los Azufres volcanic complex in Mexico, and studies are needed to determine their microbial genomic diversity. Here, we report a metagenome of hot spring sediments and a metagenome-assembled genome of “ Candidatus Aramenus sulfurataquae.” This study reveals novel genomic sequences of Sulfolobales archaea.

The molecular interplay of the establishment of an infection – gene expression of Diaphorina citri gut and Candidatus Liberibacter asiaticus

Citation
Bento et al. (2021). BMC Genomics 22 (1)
Names
Ca. Liberibacter asiaticus
Abstract
Abstract Background Candidatus Liberibacter asiaticus (CLas) is one the causative agents of greening disease in citrus, an unccurable, devastating disease of citrus worldwide. CLas is vectored by Diaphorina citri, and the understanding of the molecular interplay between vector and pathogen will provide additional basis for the development and implementation of successful management strategies. We focused in the molecular interplay occurring in the gut of the vecto

Deciphering Symbiotic Interactions of “ Candidatus Aenigmarchaeota” with Inferred Horizontal Gene Transfers and Co-occurrence Networks

Citation
Li et al. (2021). mSystems 6 (4)
Names
Ca. Aenigmarchaeota
Abstract
Recent advances in sequencing technology promoted the blowout discovery of super tiny microbes in the Diapherotrites , Parvarchaeota , Aenigmarchaeota , Nanoarchaeota , and Nanohaloarchaeota (DPANN) superphylum. However, the unculturable properties of the majority of microbes impeded our investigation of their behavior and symbiotic lifestyle in the corresponding c