ライフサイエンスコーパス: phylotype

1 localities, especially for the Snodgrassella phylotype.

2 es contain numerous distinct strains of each phylotype.

3 milk utilization for this infant-associated phylotype.

4 of this previously uncharacterized oral TM7 phylotype.

5 from this animal were attributed to a single phylotype.

6 port the majority of carbon fixation in both phylotypes.

7 harbored a relatively diverse assemblage of phylotypes.

8 its in GenBank were members of the known bee phylotypes.

9 Selenomonas, Prevotella, and 5 species-level phylotypes.

10 recovering, (3) tolerant, and (4) stimulated phylotypes.

11 vated but unnamed, and 68% were uncultivated phylotypes.

12 revealing the ecological roles of individual phylotypes.

13 , including 148 previously unknown bacterial phylotypes.

14 ens among these newly identified species and phylotypes.

15 re obtained for potentially novel species or phylotypes.

16 erial species present to be novel species or phylotypes.

17 omparison with sequences of known species or phylotypes.

18 About 40% of the clones were novel phylotypes.

19 niche are inhabited by distinct V. cholerae phylotypes.

20 limiting conditions for these two intriguing phylotypes.

21 lood mononuclear cells compared with healthy phylotypes.

22 upport for the pathogenic role of 17 species/phylotypes.

23 y genome tree reconstruction and metagenomic phylotyping.

24 nally, it is over 100x faster in metagenomic phylotyping.

25 ination testing, O serotyping, and PCR-based phylotyping.

26 skin microbiome changes using 16S bacterial phylotyping.

27 tio, 3.5 [CI, 1.6 to 15.5]); and Megasphaera phylotype 2 (risk ratio, 3.4 [CI, 1.4 to 5.5]).

28 eria in the Clostridiales order, Megasphaera phylotype 2, and P. lacrimalis, suggesting that vaginal

29 Of the 215 novel phylotypes, 75 were identified from multiple subjects.

30 lagellate species of the genus Symbiodinium (phylotypes A13 and A20) that live in symbiosis with reef

31 such that, at low tide, significantly higher phylotype abundances were observed from gamma-Proteobact

32 that A. tsugae harbours up to five bacterial phylotypes, according to population.

33 izobial strains, we find that bacterial rRNA phylotype accounts for 68% of amoung isolate variability

34 s, and we identified a total of 4,742 unique phylotypes across all of the hands examined.

35 istory, shaped the distribution of bacterial phylotypes across the Bacteroidetes, Firmicutes, Proteob

36 410 of 414 total sequences formed a dominant phylotype affiliated with a Methanoregula sp.), consiste

37 aled a microbial biome dominated by a single phylotype affiliated with thermophilic sulfate reducers

38 Phylotypes affiliated with sulfide-oxidizing Gamma- and

39 icrobiome, we used comparative metagenomics (phylotype analysis and SEED subsystems-based annotations

40 ominated by a Methanobrevibacter oralis-like phylotype and a distinct Methanobrevibacter subpopulatio

41 pical isolate distinct from most UPEC in its phylotype and virulence factor profile.

42 d at least 10-fold higher in acne-associated phylotypes and a cell surface hydrolase expressed in all

43 ntification of novel species or uncultivated phylotypes and species not previously associated with de

44 ed that the S-ECC group exhibited 94.5 total phylotypes and that the CF group exhibited 113.4.

45 Novel bacterial phylotypes and those associated with bacterial vaginosis

46 traintestinal infections underwent molecular phylotyping and virulence profiling.

47 ame diet, the community structure, predicted phylotype, and metabolic potentials in the rumen were ma

48 harbored >150 unique species-level bacterial phylotypes, and we identified a total of 4,742 unique ph

49 hip profiles indicate that the heterocystous phylotypes are 'rare biosphere' members of the submerged

50 Conspicuously, certain C. acnes phylotypes are associated with acne, whereas others are

51 Most zooxanthellar phylotypes are dying during expulsion upon release from

52 logenetic analysis indicated that six of the phylotypes are more closely related to previously descri

53 f strong relationships among specific fungal phylotypes as well as between fungi and other eukaryotes

54 tibacterium sp. HOT 360, and TM7 sp. HOT 356 phylotypes, as well as higher mean levels of Filifactor

55 rillions of microbes, thousands of bacterial phylotypes, as well as hydrogen-consuming methanogenic a

56 There were multiple bacterial phylotypes associated with anaerobic degradation of anil

57 On the other hand, P. acnes phylotypes associated with healthy skin induced 2- to 4-

58 The finding of novel phylotypes associated with salpingitis has important imp

59 e the highest sulfate TMV harboured 16S rRNA phylotypes associated with sulfur-oxidizing Epsilonprote

60 aled 113 operational taxonomic units (OTUs; "phylotypes") at the level of 97% similarity that belong

61 ly an iron-saving strategy for the Antarctic phylotype because only the latter two pathways have iron

62 aled that IR-FDP-A promoted higher levels of phylotypes belonging to Alcaligenaceae and a decrease in

63 Phylotypes belonging to the Roseobacter, OCS116 and mari

64 The sequence data indicated that phylotypes belonging to the Ruminococcaceae in the Firmi

65 After taxonomic annotation, 4045 phylotypes, belonging to 169 genera and 14 different phy

66 wed that the reptile strains form a distinct phylotype between mammalian C. fetus and Campylobacter h

67 One such taxon, Tannerella sp. HOT-286 (phylotype BU063), is the focus of much interest since it

68 not only by changes in relative abundance of phylotypes but also by absolute changes in phylotype occ

69 microbial composition (relative abundance of phylotypes) but not by richness, total abundance of fung

70 re developed to target gamma-proteobacterial phylotypes, but all were found to be present at low abun

71 and QIIME, which identify sequence reads as phylotypes by comparing them to reference data sets or g

72 The second phylotype, 'Ca. Serratia symbiotica', resides in bacteri

73 previously designed assays targeted distinct phylotypes (called narB subgroups) with the narB gene.

74 re frequently dominated by a single archaeal phylotype, Candidatus 'Methanoflorens stordalenmirensis'

75 xposed mats were predominantly heterocystous phylotypes (Chlorogloeopsis HTF and Fischerella).

76 ed with halitosis were Atopobium parvulum, a phylotype (clone BS095) of Dialister, Eubacterium sulci,

77 ated phylum TM7, Solobacterium moorei, and a phylotype (clone BW009) of STREPTOCOCCUS: On the basis o

78 ne BS095) of Dialister, Eubacterium sulci, a phylotype (clone DR034) of the uncultivated phylum TM7,

79 periodontal health included two uncultivated phylotypes, clone W090 from the Deferribacteres phylum a

80 ocathodes converged primarily (86-100%) on a phylotype closely related to Methanobrevibacter arboriph

81 e biofilms in the O(2)-MBfR were enriched in phylotypes closely related to the genera Pseudonocardia

82 ltering gut microbiota community by shifting phylotype composition and highlight the potential of pro

83 or likely for iron uptake, whereas the other phylotype consistently carry a high-affinity phosphate p

84 m the sponge host, and both Ca Entotheonella phylotypes contain numerous additional genes for as-yet

85 g of these isolates identified nine discrete phylotypes (cutoff = 0.03%) among them, including severa

86 The third phylotype, designated 'Ca. Annandia adelgestsuga', clust

87 n abundance, almost entirely due to a single phylotype, designated Lactobacillus 4228.

88 represents one of the most abundant 16S rRNA phylotypes detected in the healthy human large intestine

89 a significant proportion of microeukaryotic phylotypes detected in the total rDNA pools originate fr

90 erial communities, with 38% of unique active phylotypes detected under warming.

91 We also find that rhizobial phylotype diversity and composition of soils collected f

92 e analyzed using multilocus sequence typing, phylotyping, ESBL genes, plasmid replicons, virulence ge

93 nd a cell surface hydrolase expressed in all phylotypes except those associated with healthy skin.

94 The Antarctic phylotype exclusively contains an operon structure consi

95 Several phylotypes fell into two recently described phyla previo

96 There was little overlap in the phylotypes found at each site, although similar and domi

97 constructed a nearly complete genome of this phylotype from a soil metagenome for which we propose th

98 are it to the available genomes of the other phylotype from ocean regions where iron is more accessib

99 h 16S databases, identifying 3,531 bacterial phylotypes from 115 fecal samples.

100 species, but 98 (8.0%) clones, comprising 30 phylotypes, had <97% similarity to prior database sequen

101 (13)CH(4)-DNA-SIP analyses identify over 70 phylotypes harboring genes associated with denitrificati

102 Phylotype IA-1 C-type strains were increased on lesional

103 Furthermore, the aniline degrading phylotypes identified in the current study are not relat

104 Phylotype II K-type strains were more frequent on health

105 present the genome of the type strain, K60 (phylotype IIA, sequevar 7).

106 te division OD1 were the major taxa with one phylotype in Euryarchaeota.

107 37 appeared in >50% of the samples, with one phylotype in the Lachnospiraceae family present in 99%.

108 Leptotrichia spp. were detected as the sole phylotypes in 1, and mixed with other bacterial phylotyp

109 lotypes in 1, and mixed with other bacterial phylotypes in 2, specimens.

110 imultaneously and differentiate 15 different phylotypes in an artificial mixture of laboratory-grown

111 the presence of eight distinctive bacterial phylotypes in intestinal tracts of adult worker bees.

112 nt with the typical distribution of archaeal phylotypes in marine environments.

113 died to date, hosting thousands of bacterial phylotypes in species-specific associations.

114 e total diversity of species-level bacterial phylotypes in the 1.2-1.5 million bacterial 16S rRNA rea

115 The most commonly detected phylotypes in the clonal analysis were Gemella morbillor

116 ma spp. were the most sensitive, followed by phylotypes in the Microcoleus steenstrupii complex.

117 ndant ASVs revealed niche partitioning of LP phylotypes in the pelagic ocean, including those that co

118 were representative of numerically dominant phylotypes in their respective samples and strengthened

119 inosis had 1 to 6 vaginal bacterial species (phylotypes) in each sample (mean, 3.3), as detected by b

120 tibacterium sp. HOT 362, and TM7 sp. HOT 356 phylotypes, in addition to F. alocis, F. fastidiosum, an

121 ssociated Treponema isolates comprised three phylotypes, in agreement with the results of 16S rDNA an

122 Less-abundant phylotypes include several minor members from other cand

123 Nineteen of the species or phylotypes, including Propionibacterium acnes, Staphyloc

124 tis were observed for several new species or phylotypes, including uncultivated clones D084 and BH017

125 We sought to determine if these phylotypes induce different immunological responses and

126 We found that acne-associated P. acnes phylotypes induced 2- to 3-fold higher levels of IFN-gam

127 a provide insight into how specific P. acnes phylotypes influence immune responses and the pathogenes

128 ion was specific, with a single crenarchaeal phylotype inhabiting a single sponge host species.

129 ue to ethene oxidation, and suggest a unique phylotype is involved in this process.

130 ological filtration of microorganisms at the phylotype level.

131 The heterocystous phylotypes likely emerge when the water level of the hot

132 Our findings indicate that 83 phylotypes (<0.1% of the retrieved fungi), mostly belong

133 bacterial diversity (P<0.001), with 9 to 17 phylotypes (mean, 12.6) detected per sample and newly re

134 ridiales were dominant with sulfate-reducing phylotypes more common in the sulfate-amended sediments.

135 Species or phylotypes more prevalent in periodontal health included

136 Bacterial phylotypes most closely related to Leptotrichia spp. wer

137 Phylotypes most closely related to Shewanella and a Chlo

138 bial community analysis showed that the same phylotype, most closely related to Methanobrevibacter ar

139 Isolates underwent PCR-based phylotyping, multilocus sequence typing, PCR-based detec

140 relationships were defined by amplification phylotyping, nicotinamide auxotrophy, and outer membrane

141 te perturbation, with selection of different phylotypes not initially detectable.

142 f phylotypes but also by absolute changes in phylotype occurrence (richness).

143 dominated by archaea that relied on a single phylotype of Halothece cyanobacteria for primary product

144 rm Riftia pachyptila hosts a single 16S rRNA phylotype of intracellular sulfur-oxidizing symbionts, w

145 al biofilm communities dominated by a single phylotype of Methanosarcinales.

146 crocoleus vaginatus by thermotolerant, novel phylotypes of bundle-forming cyanobacteria.

147 ntitis, and the levels of several species or phylotypes of Campylobacter, Selenomonas, Deferribactere

148 pyrosequencing, we elucidated how important phylotypes of each "primary" microbial group, i.e., deni

149 A few other phylotypes of salt-adapted bacteria and archaea, includi

150 s its sister clade, the Lobulomycetales, and phylotypes of SC1 show significant (P < 0.003) genetic-i

151 to photosynthetic loss differs among various phylotypes of Symbiodinium, their dinoflagellate symbion

152 Two phylotypes of the candidate genus 'Entotheonella' with g

153 16S-tRNA(Ile) region of ISR2 permitted rapid phylotyping of California and Iowa PDD-associated Trepon

154 About half of the clones were identified as phylotypes, of which 29 were novel to the tongue microbi

155 lysis of excised DGGE bands consisted of 2.7 phylotypes, on average.

156 inct host types and three different symbiont phylotypes (one epsilon-proteobacteria and two gamma-pro

157 Four phylotypes, one within Gammaproteobacteria (correspondin

158 There is almost no overlap in phylotype [or operational taxonomic unit (OTU)] occurren

159 forsythus and a newly identified Bacteroides phylotype, oral clone BU063, to periodontal health statu

160 ntly one of the most abundant soil bacterial phylotypes, particularly in grasslands, where it was typ

161 n: 38%), while environmental Legionella-like phylotypes peaked (19%) during Period II (complete nitri

162 NA reads, corresponding to 221 species-level phylotypes per subject.

163 nes identified five species and four unknown phylotypes, potentially representing new species.

164 AOB phylotypes predominantly from the known Nitrosomonas gro

165 colonized by a diverse amalgam of bacterial phylotypes producing multitudes of foreign microbial pro

166 Phylotype profiles of the gut microbial populations were

167 rectal E. coli isolates were compared using phylotyping, pulsed-field gel electrophoresis (PFGE) ana

168 ne sediment with lactate favoured a 16S rRNA-phylotype related to the sulphate-reducing Desulfovibrio

169 Phylotypes related to archaeal Thaumarchaeota and Euryar

170 Community analysis also showed phylotypes related to Bacteroidaceae and Microbacteriace

171 d genome (705 kb) for a human-associated TM7 phylotype revealed a complete lack of amino acid biosynt

172 Comparative proteomic analysis of P. acnes phylotypes revealed a differential expression of several

173 of rRNA of the Snodgrassella and Gilliamella phylotypes revealed that single bees contain numerous di

174 cal isolates can be classified into distinct phylotypes, several of which have associations with heal

175 Moreover, the specific patterns of phylotype sharing among hosts suggest that chimpanzees l

176 Bacterial phylotypes shifted after 14 d of antibiotic treatment, w

177 Oligotyping analysis of UCYN-A phylotype showed that UCYN-A2 sublineage was the most ab

178 Specific phylotypes showed differential effects of selenium, even

179 Amplification phylotyping showed that 16 (21%) of the 75 non-European

180 to two of the three culturable DD treponeme phylotypes: specifically, the Treponema medium/Treponema

181 e community's productivity and rare bacteria phylotypes stimulated by AgNPs did not appear to contrib

182 nship, they competed effectively with DB/PRB phylotypes such as Xanthomonadales and Rhodobacterales.

183 the pH gradient, and the enrichment of a few phylotypes suggested their adaptation to low pH conditio

184 tween cell activity indicators and bacterial phylotypes, suggested that tolerant and recovering bacte

185 ition, sharing on average 53% more bacterial phylotypes than the gut communities of allopatric hosts.

186 mbers from other candidate divisions and one phylotype that was an outlier of candidate division OP3.

187 al genome sequences of 122 RNA bacteriophage phylotypes that are highly divergent from each other and

188 mpanied by increasing relative abundances of phylotypes that are most closely related to anode respir

189 robial community consisted of 347 species or phylotypes that fall into 9 bacterial phyla.

190 A number of species or phylotypes that may play a role in health or disease wer

191 tive core microbiome was identified based on phylotypes that occurred in all stomach or gut samples o

192 genes identified mucosa-associated bacterial phylotypes that were colony-specific.

193 Phylotypes that were unique to noma infections included

194 ed for their content of 20 bacterial species/phylotypes through the RNA-oligonucleotide quantificatio

195 In this study, we cultivated a TM7 phylotype (TM7x) from the human oral cavity.

196 n 1,000 soils and found this spartobacterial phylotype to be ubiquitous and consistently one of the m

197 compared with sequences of known species or phylotypes to determine species identity or closest rela

198 d gel electrophoresis, and multiplex PCR for phylotyping to determine their resistance profiles and c

199 Moreover, the Antarctic phylotype uses proteorhodopsin to acquire light, whereas

200 ies, increases in levels of the uncultivated phylotype Veillonella sp. oral clone X042, a gram-negati

201 fH sequences, although a novel Trichodesmium phylotype was also recovered.

202 While no single bacterial phylotype was shared across all genotypes, we found stro

203 A diverse community of 128 phylotypes was identified, featuring diversity at this s

204 f the 575 major bacterial amplicon variants (phylotypes), we discovered that microbiome composition i

205 d across the bay, while Nitrosomonas group B phylotypes were absent from low salinity sites.

206 The phylotypes were closely related to extant members of the

207 Moreover, several additional bacterial phylotypes were common to the atherosclerotic plaque and

208 D-FISH), we show that only four novel clonal phylotypes were consistently associated with multiple je

209 Fifty-one of the 92 species or phylotypes were detected in more than one subject.

210 Two Betaproteobacteria phylotypes were detected in some Japanese T. sieboldii a

211 A total of 67 bacterial species or phylotypes were detected, 25 of which have not yet been

212 M analysis, a total of 170 bacterial species/phylotypes were detected, with a range of 40 to 80 speci

213 revealed that all three unique DD treponeme phylotypes were found in elk hoof disease, and in 23% of

214 A number of species or phylotypes were found only in subjects with disease, and

215 Both phylotypes were grown in continuous cultures under ident

216 Ten novel phylotypes were identified.

217 The same typical bacterial phylotypes were present in all colonies and at both site

218 Ten percent of the phylotypes were previously uncharacterized, including a

219 The phylotypes were taxonomically assigned to 29 genera of 1

220 f designated 'rare' genera (up to 60% of all phylotypes) were always rare.

221 ornia cattle showed that they comprise three phylotypes which cluster closely with human-associated T

222 t cyanobacteria were predominantly one novel phylotype while the exposed mats were predominantly hete

223 Therefore, the two DC5-80-3 phylotypes, while diverging by only 1.1% in their 16S rR

224 om heavily contaminated aquifer sediments, a phylotype with 92.7% sequence similarity to Ignavibacter

225 ibrary from a sixth-generation culture was a phylotype with a sequence ca. 90% identical with a clade

226 er, this work demonstrates correspondence of phylotype with microbial function, and demonstrates that

227 ial communities contain ~1 billion bacterial phylotypes with a Poisson lognormal diversity distributi

228 Of the 134 phylotypes with a relative abundance of >0.1% in the com

229 Phylotypes with correlated relative abundances were foun

230 and strengthened the association of certain phylotypes with either ruminants or hindgut-fermenters.

231 the same individual shared only 17% of their phylotypes, with different individuals sharing only 13%.

232 s contained an estimated 4,018 species-level phylotypes, with each sample having a unique species ass

233 ayed susceptibility to depression behavioral phylotypes, with neuronal hyperactivity and an imbalance

234 om contaminated canal sediments, a bacterial phylotype within the family Anaerolineaceae, but without

235 Phylotypes within the class Dehalococcoidia associated w

236 Phylotypes within the Deltaproteobacteria were more comm

237 es richness driven primarily by a paucity of phylotypes within the Firmicutes phylum.

238 nature of the globally distributed dominant phylotypes within the soil network in maintaining multip

239 Previous studies revealed two phylotypes within this cluster that are distinctly distr