Abstract:Two novel strains of Gram-stain-negative, rod-shaped, obligately anaerobic, non-spore-forming, non-motile bacteria were isolated from the faeces of healthy human subjects. The strains, designated as 585-1 T and 668, were characterized by mesophilic fermentative metabolism, production of D-lactic acid, succinic acid and acetic acid as end products of D-glucose fermentation, prevalence of C 18 : 1 !9, C 18 : 1 !9 aldehyde, C 16 : 0 and C 16 : 1 !7c fatty acids, presence of glycine, glutamic acid, lysine, alanine… Show more
“…The genome annotation of strain AT3 was performed as previously described [12] and compared to the genomes of his relatives species. For the comparison, genomes of closest species were automatically retrieved from the 16S rRNA tree and thus, Anaerotruncus colihominis strain WAL 14565 T (= CCUG 45055 T = CIP 107754 T ) (ABGD00000000) [11], Hydrogenoanaerobacterium saccharovorans strain SW512 T (= AS 1.5070 T = JCM 14861 T ) (FOCG00000000) [22], Ruthenibacterium lactatiformans strain 585–1 T (= DSM 100348 T = VKM B-2901 T ) (JXXK00000000) [23], Acutalibacter muris strain KB18 T (= DSM 26090 T = KCTC 15540 T ) (CP021422) [24], Acetanaerobacterium elongatum strain Z7 T (= JCM 12359 T = AS 1.5012 T ) (FNID00000000) [25], Ruminococcus flavefaciens strain C94 T (= ATCC 19208 T ) (JAEF00000000) [26] and Ruminococcus champanellensis strain 18P13 T (= DSM 18848 T = JCM 17042 T ) (FP929052) [27] were selected. For each selected genome, complete genome sequence, proteome genome sequence and Orfeome genome sequence were retrieved from NCBI's FTP.…”
A new bacterium, strain AT3
T
, was isolated by microbial culturomics from a faecal sample from a Frenchman after bariatric surgery. The isolate exhibited 96.6% 16S ribosomal RNA gene nucleotide sequence similarity with
Anaerotruncus colihominis
strain WAL 14565
T
= CCUG 45055
T
= CIP 107754
T
. Phenotypic and genomic characteristics showed that the new strain represents a novel species, for which the name
Anaerotruncus massiliensis
sp. nov. is proposed. The type strain is strain AT3
T
= CSUR P2007
T
= DSM 100567
T
.
“…The genome annotation of strain AT3 was performed as previously described [12] and compared to the genomes of his relatives species. For the comparison, genomes of closest species were automatically retrieved from the 16S rRNA tree and thus, Anaerotruncus colihominis strain WAL 14565 T (= CCUG 45055 T = CIP 107754 T ) (ABGD00000000) [11], Hydrogenoanaerobacterium saccharovorans strain SW512 T (= AS 1.5070 T = JCM 14861 T ) (FOCG00000000) [22], Ruthenibacterium lactatiformans strain 585–1 T (= DSM 100348 T = VKM B-2901 T ) (JXXK00000000) [23], Acutalibacter muris strain KB18 T (= DSM 26090 T = KCTC 15540 T ) (CP021422) [24], Acetanaerobacterium elongatum strain Z7 T (= JCM 12359 T = AS 1.5012 T ) (FNID00000000) [25], Ruminococcus flavefaciens strain C94 T (= ATCC 19208 T ) (JAEF00000000) [26] and Ruminococcus champanellensis strain 18P13 T (= DSM 18848 T = JCM 17042 T ) (FP929052) [27] were selected. For each selected genome, complete genome sequence, proteome genome sequence and Orfeome genome sequence were retrieved from NCBI's FTP.…”
A new bacterium, strain AT3
T
, was isolated by microbial culturomics from a faecal sample from a Frenchman after bariatric surgery. The isolate exhibited 96.6% 16S ribosomal RNA gene nucleotide sequence similarity with
Anaerotruncus colihominis
strain WAL 14565
T
= CCUG 45055
T
= CIP 107754
T
. Phenotypic and genomic characteristics showed that the new strain represents a novel species, for which the name
Anaerotruncus massiliensis
sp. nov. is proposed. The type strain is strain AT3
T
= CSUR P2007
T
= DSM 100567
T
.
“…Among these dominant OTUs, Clostridiaceae (OTU 96) and Ruminococcaceae (OTU 97) were most dominant in all digesters on both days 15 and 45 ( Figure 3). Both are strictly anaerobic, fermentative bacteria; Clostridiaceae produces organic acids and alcohols from carbohydrates or peptones and Ruminococcaceae generates organic acids and H 2 as end products [34,35]. Similar to results observed for archaeal community, the pyrolysis conditions under which APL was produced affected the bacterial communities.…”
Pyrolysis can convert wastewater solids into useful byproducts such as pyrolysis gas (py-gas), bio-oil and biochar. However, pyrolysis also yields organic-rich aqueous pyrolysis liquid (APL), which presently has no beneficial use. Autocatalytic pyrolysis can beneficially increase py-gas production and eliminate bio-oil; however, APL is still generated. This study aimed to utilize APLs derived from conventional and autocatalytic wastewater solids pyrolysis as co-digestates to produce biomethane. Results showed that digester performance was not reduced when conventional APL was co-digested. Despite having a lower phenolics concentration, catalyzed APL inhibited methane production more than conventional APL and microbial community analysis revealed a concomitant reduction in acetoclastic Methanosaeta. Long-term (over 500-day) co-digestion of conventional APL with synthetic primary sludge was performed at different APL organic loading rates (OLRs). Acclimation resulted in a doubling of biomass tolerance to APL toxicity. However, at OLRs higher than 0.10 gCOD/Lr-d (COD = chemical oxygen demand, Lr = liter of reactor), methane production was inhibited. In conclusion, conventional APL COD was stoichiometrically converted to methane in quasi steady state, semi-continuous fed co-digesters at OLR ≤ 0.10 gCOD/Lr-d. Undetected organic compounds in the catalyzed APL ostensibly inhibited anaerobic digestion. Strategies such as use of specific acclimated inoculum, addition of biochar to the digester and pretreatment to remove toxicants may improve future APL digestion efforts.
“…5b). The closest relatives to F. prausnitzii taxa were the human gut symbionts Gemmiger / Subdoligranulum and Ruthenibacterium lactatiformans [44] . Fig.…”
BackgroundFaecalibacterium prausnitzii is a ubiquitous member of the human gut microbiome, constituting up to 15% of the total bacteria in the human gut. Substantial evidence connects decreased levels of F. prausnitzii with the onset and progression of certain forms of inflammatory bowel disease, which has been attributed to its anti-inflammatory potential. Two phylogroups of F. prausnitzii have been identified, with a decrease in phylogroup I being a more sensitive marker of intestinal inflammation. Much of the genomic and physiological data available to date was collected using phylogroup II strains. Little analysis of F. prausnitzii genomes has been performed so far and genetic differences between phylogroups I and II are poorly understood.ResultsIn this study we sequenced 11 additional F. prausnitzii genomes and performed comparative genomics to investigate intraspecies diversity, functional gene complement and the mobilome of 31 high-quality draft and complete genomes. We reveal a very low level of average nucleotide identity among F. prausnitzii genomes and a high level of genome plasticity. Two genomogroups can be separated based on differences in functional gene complement, albeit that this division does not fully agree with separation based on conserved gene phylogeny, highlighting the importance of horizontal gene transfer in shaping F. prausnitzii genomes. The difference between the two genomogroups is mainly in the complement of genes associated with catabolism of carbohydrates (such as a predicted sialidase gene in genomogroup I) and amino acids, as well as defense mechanisms.ConclusionsBased on the combination of ANI of genomic sequences, phylogenetic analysis of core proteomes and functional differences we propose to separate the species F. prausnitzii into two new species level taxa: F. prausnitzii sensu stricto (neotype strain A2–165T = DSM 17677T = JCM 31915T) and F. moorei sp. nov. (type strain ATCC 27768T = NCIMB 13872T).Electronic supplementary materialThe online version of this article (10.1186/s12864-018-5313-6) contains supplementary material, which is available to authorized users.
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