ライフサイエンスコーパス: archaea

1 scoveries of novel N2O-reducing bacteria and archaea.

2 ass of membrane transporters in bacteria and archaea.

3 signed to lineages (7,13,14) of uncultivated Archaea.

4 gulatory networks for vitamin homeostasis in Archaea.

5 a Radiation (CPR) and as yet uncharacterized Archaea.

6 e to elucidate a unique DNA repair system in Archaea.

7 m comes from polyploid plants, bacteria, and archaea.

8 al oxidases that are present in bacteria and archaea.

9 he biological function of essential genes in archaea.

10 cycling of inorganic arsenic in bacteria and archaea.

11 tes the group as a putative novel lineage of archaea.

12 n be harnessed to repress gene expression in archaea.

13 event before the separation of bacteria and archaea.

14 ections between the two types of entities in archaea.

15 t an ancestral and diagnostic feature of the Archaea.

16 of metabolism and taxonomy among planktonic archaea.

17 rts of 40% occurrence in bacteria and 81% in archaea.

18 The picture is still elusive in Archaea.

19 tous nanomachines widespread in Bacteria and Archaea.

20 minate nucleic acid invaders in bacteria and archaea.

21 ta to ectosymbiosis, so far unique among the Archaea.

22 posed to carry out genome replication in the Archaea.

23 nd peptide fermentation of hyperthermophilic archaea.

24 n, one rRNA modification type in Eukarya and Archaea.

25 zed mechanism for adaptation in bacteria and archaea.

26 es to eukaryotes, after their emergence from Archaea.

27 g to the HerA-NurA complex from thermophilic archaea.

28 eas higher termites harbor only bacteria and archaea.

29 e bacteria, some Gram-negative bacteria, and Archaea.

30 the phylogenetic divide between bacteria and archaea.

31 in bacteria and their viruses, but never in archaea.

32 is produced only by a subset of bacteria and archaea.

33 suppressor tRNAs have not been identified in archaea.

34 for large spindle viruses, which infect only Archaea.

35 bacteria and eukaryotes but not for those in archaea.

36 cation), which is widespread in bacteria and archaea.

37 are widely conserved throughout Eukarya and Archaea.

38 his pathway is found in neither bacteria nor Archaea.

39 absent in almost all Actinobacteria and many Archaea.

40 ce the tree root between DPANN and all other Archaea.

41 entous appendages found on many Bacteria and Archaea.

42 the SecYEG complex and YidC in bacteria and archaea.

43 e molecules produced by diverse bacteria and archaea.

44 d exclusively by beta-proteobacterial AOB or archaea.

45 pathways to prokaryotes such as bacteria and archaea.

46 ell division in nearly all bacteria and many archaea.

47 to vary widely among different bacteria and archaea (1,2) .

48 positive and Gram-negative bacteria and most archaea(1-5).

49 de colonocytes (~107 per gram of wet stool), archaea (~108 per gram of wet stool), viruses (~108 per

50 261 bacteriocins from bacteria, 4 AMPs from archaea, 7 from protists, 13 from fungi, 321 from plants

51 responding enhancement of methane-generating Archaea (a 9-fold increase).

52 all domains of life, existed in methanogenic archaea about 3.5 billion years ago.

53 Bacteria and archaea acquire resistance to foreign genetic elements b

54 ADPGK is found in Archaea and metazoa; in Archaea, ADPGK participates in a glycolytic role, but a

55 Asgard archaea affiliate with eukaryotes in phylogenomic analys

56 ercent of methane oxidation was catalyzed by archaea affiliated to Ca.

57 serve as defence mechanisms for bacteria and archaea against viruses and plasmids.

58 trate an approach to concurrently survey the archaea alongside the bacteria with high-resolution 16S

59 itrifying anaerobic methane oxidation (DAMO) archaea, Anammox bacteria and DAMO bacteria jointly domi

60 gs further expand the metabolic potential of Archaea and argue for a revision of the role of Archaea

61 electric conductivity between co-associated archaea and bacteria best fit the empirical data.

62 d short palindromic repeats) system protects archaea and bacteria by eliminating nucleic acid invader

63 mber of viruses identified from thermophilic Archaea and Bacteria is still very small.

64 ions of distinct thermophilic and halophilic archaea and bacteria may indicate lateral gene transfer.

65 nitrification activity and ammonia-oxidizing archaea and bacteria populations were observed only for

66 m is a part of the adaptive immune system in archaea and bacteria to defend against invasive nucleic

67 Archaea and bacteria utilize a conserved set of multifun

68 Found exclusively in archaea and bacteria, these transporters are composed of

69 ounteract the toxicity, are widespread among archaea and bacteria.

70 d between Archaea and eukaryotes and between Archaea and Bacteria.

71 ark, compared with only approximately 14% in archaea and bacteria.

72 on of IS families across taxonomic clades in Archaea and Bacteria.

73 l CRISPR-Cas loci identified in bacteria and archaea and can target both DNA and RNA.

74 bacteria but is present only in one genus of archaea and certain eukaryotic microbes.

75 l means of adaptive immunity in bacteria and archaea and deepened our understanding of the interplay

76 version of the tree of life, with Bacteria, Archaea and Eukarya included.

77 he SecY or Sec61alpha channel in Bacteria or Archaea and Eukarya, respectively.

78 of many proteins that play a crucial role in Archaea and Eukarya.

79 separate analysis of markers shared between Archaea and eukaryotes and between Archaea and Bacteria.

80 Group II chaperonins, found in archaea and eukaryotes, contain a built-in lid that open

81 stablishment of bidirectional replication in archaea and eukaryotes.

82 lar basis of inhibition is conserved between archaea and eukaryotes.

83 hat the diverse tRNA thiolation processes in archaea and eukaryotic cytosols share a common mechanism

84 ThiI (in bacteria and archaea) and Ncs6 (in archaea and eukaryotic cytosols) catalyze the formation

85 Simpson's paradox, was absent for lipids in archaea and for lipids not common to plasma membranes of

86 the downstream fjord, we targeted Bacteria, Archaea and Fungi communities during austral autumn and

87 ence genomes representing bacteria, viruses, archaea and fungi with manually curated species classifi

88 m-1 homologs are widely present in bacteria, archaea and fungi, UPF0261- and TBST-domain-containing p

89 thermophilic bacteria and hyperthermophilic archaea and is required for growth at high temperature.

90 from those previously observed for bacteria, archaea and macrofauna in methane seep ecosystems.

91 line, proteinaceous structures found in most archaea and many bacteria.

92 ADPGK is found in Archaea and metazoa; in Archaea, ADPGK participates in a

93 many Archaea and some Bacteria, of which all Archaea and most Bacteria also encode an RNA-based RNase

94 enera, but the transcript profiles of fungi, archaea and most bacterial phyla were significantly diff

95 Archaea and particularly hyperthermophilic crenarchaea a

96 rtment is widely distributed in bacteria and archaea and represents a distinct class of iron storage

97 uifex RNase P (HARP) were identified in many Archaea and some Bacteria, of which all Archaea and most

98 karyotes from within the radiation of modern Archaea and specifically from a group comprising Thaumar

99 s are ubiquitous in eubacteria, prevalent in archaea and temperate phages, present in certain yeast s

100 acting protein NreA that is conserved in the archaea and that has a PIP motif at its C-terminus.

101 me, originating before the divergence of the Archaea and the Bacteria.

102 cytochromes in the genomes of methanotrophic archaea and the demonstration of redox-dependent stainin

103 of these observations for DNA replication in archaea and the differences and similarities among helic

104 teract with Smc-kleisin rings from bacteria, archaea and the eukaryotic Smc5-6 complex, but not with

105 PINA is conserved in archaea and vital for S. islandicus viability.

106 th across a large compendium of genotypes in archaea and yeast.

107 lies absent from all other ammonia-oxidizing archaea and, for most of these gene families, expression

108 A modification enzymes ThiI (in bacteria and archaea) and Ncs6 (in archaea and eukaryotic cytosols) c

109 We tested SlopeTree on 495 bacteria, 73 archaea, and 72 strains of Escherichia coli and Shigella

110 lular vesicles (EVs) released by eukaryotes, archaea, and bacteria contain proteins, lipids, polysacc

111 ent in Type IA topoisomerases from bacteria, archaea, and eukarya.

112 ion cycle differs substantially in bacteria, archaea, and eukaryotes in terms of the requirements for

113 nt roles in ordering cell space in bacteria, archaea, and eukaryotes.

114 c (alpha2) species present in some bacteria, archaea, and eukaryotes; and a heterotetrameric form (al

115 le hybrids between two species of halophilic archaea, and measure genome-wide ASE in these hybrids wi

116 s that are widespread in anaerobic bacteria, archaea, and protozoa, serving as the terminal component

117 ional diversification of cleavage factors in archaea, and provide novel insights into transcription i

118 they are present in bacteriophage, bacteria, archaea, and simple and complex eukaryotes.

119 gether, our work extends the study of ASE to archaea, and suggests that cis-regulation can evolve und

120 rizontal gene transfer (HGT) among bacteria, archaea, and viruses is widespread, but the extent of tr

121 alongside more rapidly evolving prokaryotes, archaea, and viruses posed immunological challenges of a

122 echanisms have been described in eukaryotes, archaea, and viruses.

123 C taxon, with nonbacterial methane-producing Archaea; and those for the two lowest delta(13)C taxa, w

124 are composed of anaerobic methane-oxidizing archaea (ANME) and sulfate-reducing bacteria, have been

125 ted by consortia of anaerobic methanotrophic archaea (ANME) that live in syntrophy with sulfate-reduc

126 Ammonia oxidizing archaea (AOA) and bacteria (AOB) drive nitrification and

127 Ammonia-oxidizing archaea (AOA) are among the most abundant microorganisms

128 Ammonia-oxidising bacteria (AOB) and archaea (AOA) are involved in the first step of nitrific

129 ures of ammonia oxidising bacteria (AOB) and archaea (AOA) produce N2 O, their relative activities in

130 Ammonia oxidizing archaea (AOA) were more abundant than ammonia oxidizing

131 several ammonia-oxidizing bacteria (AOB) and archaea (AOA), as well as one complete ammonia oxidizer

132 nitrous oxide (N2 O) than ammonia oxidising archaea (AOA), due to their higher N2 O yield under oxic

133 nd potential importance of ammonia-oxidizing archaea (AOA), we investigated the capabilities of an AO

134 abundance of ammonia oxidising bacteria and archaea (AOB/AOA) via the ammonia monooxygenase gene amo

135 t investigations have provided evidence that Archaea are a constant but highly variable component of

136 erobic methanotrophic bacteria and anaerobic archaea are able to selectively oxidize methane using me

137 Viruses infecting archaea are among the most mysterious denizens of the vi

138 Archaea are characterised by a complex metabolism with m

139 l fraction of the genes in most bacteria and archaea are dedicated to antiparasite defense.

140 ey contributors to biogeochemical processes, archaea are frequently outnumbered by bacteria, and cons

141 Archaea are major contributors to biogeochemical cycles,

142 Methanogenic archaea are major players in the global carbon cycle and

143 Intriguing, yet uncultured 'ARMAN'-like archaea are metabolically dependent on other members of

144 Our results reveal that archaea are more abundant in human subjects either older

145 ted in all four genomes inferring that these Archaea are organo-heterotrophic and autotrophic acetoge

146 this finding suggests that viruses infecting Archaea are still an understudied group.

147 Gold Mine Miscellaneous Euryarchaeal Group) Archaea are unknown.

148 Marine Group II archaea are widely distributed in global oceans and domi

149 Whether prokaryotes (Bacteria and Archaea) are naturally organized into phenotypically and

150 Phylogenomic analyses place SAGMEG Archaea as a deeply rooting sister clade of the Thermoco

151 as9 system, first identified in bacteria and archaea as an adaptive immune response to invading genet

152 hat Spt4/5 is a general elongation factor in archaea as its presence on all genes matches RNAP.

153 abundance of ANME (anaerobic methanotrophic archaea), as well as aerobic Methylococcales, sulfate-re

154 monstrated to inhibit growth of methanogenic archaea at concentrations that do not affect the growth

155 croorganisms from the three domains of life (Archaea, Bacteria and Eukaryota:Fungi) in soil samples t

156 capturing the specific tRNASec structure in archaea, bacteria and eukaryotes.

157 nomes from metagenomes (GFM) from uncultured archaea, bacteria and viruses and (iii) metagenomes from

158 al diversity from all three domains of life (Archaea, Bacteria, and Eukarya).

159 caused by exposure to gamma radiation across archaea, bacteria, and eukaryotes, including fungi and h

160 Circular single-stranded DNA viruses infect archaea, bacteria, and eukaryotic organisms.

161 identified in thousands of organisms across archaea, bacteria, fungi, and algae.

162 re ocean basins; (2) research themes such as archaea, bacteria, viruses, mangroves, turtles, and ocea

163 III secretion may have evolved prior to the archaea/bacteria split.

164 Because molecular biology analyses in archaea become more and more widespread such a tool is v

165 econd polyprenyl moiety like ether lipids in Archaea but is dephosphorylated and acetylated.

166 ber of DNA repair pathways in eukaryotes and archaea by acting as a stable platform onto which other

167 tions of SUP05, Aquificales and methanogenic archaea carrying out important transformations of carbon

168 ly anaerobic methanogenic and methanotrophic archaea, catalyzes the reversible production and consump

169 in the metabolism of anaerobic bacteria and archaea, catalyzing the reversible synthesis of acetyl-C

170 is identified PmC11 orthologues in bacteria, archaea, Chromerids, Coccidia, and Kinetoplastida, the l

171 In eukaryotes and archaea, cis-PT is the first enzyme committed to the syn

172 The enzyme responsible for this reaction in archaea (CofE) comprises a single domain and produces F4

173 e the genetic transformation of bacteria and archaea considered intractable and difficult-to-transfec

174 Most bacteria and archaea contain filamentous proteins and filament system

175 which is present in a subset of bacteria and archaea, contains only a single 6-TM domain and function

176 Psychrophilic methanogenic Archaea contribute significantly to global methane emiss

177 f global methane emissions, and methanogenic archaea could be detected in all spatial compartments of

178 For archaea currently no tools for transcriptional repressio

179 synthesis are partially conserved in various archaea, cyanobacteria, and some proteobacteria, such as

180 Mycorrhizal fungi and methanogenic archaea decreased in relative abundance with nutrient ad

181 Bacteria and archaea employ adaptive immunity against foreign genetic

182 Archaea encode a eukaryotic-type primase comprising a ca

183 The majority of archaea encode CRISPR-Cas systems but only a few CRISPR-

184 These widespread archaea encode putative intra- and extracellular proteas

185 In Archaea, ether lipids play an essential role as the main

186 he mechanisms used by termination factors in archaea, eukarya, and bacteria to disrupt the TEC may be

187 Viruses from the third domain of life, Archaea, exhibit unusual features including extreme stab

188 olypeptide chains, the MCM complexes of many Archaea form homohexamers from a single gene product.

189 comprises a monophyletic group of uncultured archaea found in different hypersaline environments.

190 ive immune system that protects bacteria and archaea from invading nucleic acids.

191 opulated by a wide diversity of bacteria and archaea from phyla lacking isolated representatives (can

192 mportance of the microbiome (i.e., bacteria, archaea, fungi, and viruses) to holobiont functioning ha

193 closely associated microorganisms (bacteria, archaea, fungi, and viruses).

194 t are from microbes, predominantly bacteria, archaea, fungi, and viruses.

195 of the Genomic Encyclopedia of Bacteria and Archaea (GEBA) initiative, selected to maximize sequence

196 Viruses infecting the Archaea harbor a tremendous amount of genetic diversity.

197 e imposed by phage predation on bacteria and archaea has resulted in the development of effective ant

198 targeting or repair; and its application to Archaea has yet to be reported.

199 and found that the majority of bacteria and archaea have a core set of proteins that evolves by desc

200 Archaea have a simplified subset of the eukaryotic DNA r

201 Although many Archaea have AMP-Acs (acetyl-coenzyme A synthetase) and

202 abolic capabilities of uncultured ARMAN-like archaea have been uncertain.

203 Membrane lipids of marine planktonic archaea have provided unique insights into archaeal ecol

204 c nuclear lineage originated from within the Archaea; however, published studies based on outgroup ro

205 (</= 100 m) and deep (>100 m) populations of archaea, (ii) stratification of unsaturated GDGTs with v

206 gens, in 28/32 brain abscess samples, and no archaea in 71 negative controls (P < 10-6).

207 Archaea-specific qPCR yielded archaea in 8/18 brain abscess specimens and 1/27 control

208 The relative fraction of MCG Archaea in clone libraries decreased at shallow sediment

209 he ubiquity of saturated menaquinones in the Archaea in comparison to Bacteria suggests that these co

210 tions of the biogeochemical roles of benthic Archaea in marine sediments are hampered by the scarcity

211 The role of archaea in microbial mats is poorly understood.

212 nsistent with the near-basal position of the Archaea in rRNA phylogenies.

213 (reanalysed from published work) divided the Archaea in spring sediment samples into three major grou

214 ial load while reducing the abundance of the Archaea in the abomasum but did not appear to affect mic

215 haea and argue for a revision of the role of Archaea in the carbon cycle of marine sediments.

216 Our study suggests that the resident Archaea in these hot springs are acclimated if not adapt

217 ommunity composition (i.e., algae, bacteria, archaea) in distinct surface habitats and on 12 glaciers

218 complexity in transcriptomes of bacteria and archaea, including abundant non-coding RNAs, cis-antisen

219 ANN comprises the Euryarchaeota and the TACK Archaea, including Lokiarchaeum, which our analyses sugg

220 sing the glycolytic ADP-dependent kinases of archaea, including the orders Thermococcales, Methanosar

221 pertoire of 'eukaryote-specific' proteins in Archaea, indicating that the archaeal host cell already

222 d DNA are phylogenetically related to actual Archaea inhabiting surface evaporitic environments, simi

223 Evolution of bacteria and archaea involves an incessant arms race against an enorm

224 vin biosynthesis in many Bacteria but not in Archaea is controlled by FMN-responsive riboswitches.

225 tein stability by Urm1 and the proteasome in archaea is likely representative of an ancient pathway f

226 ble of traversing blocking DNA lesions, most archaea lack these enzymes.

227 Studying Archaea may provide clues as these organisms share chara

228 rophic Bacteria 'syntrophs' and methanogenic Archaea 'methanogens' form a unique metabolic interactio

229 ontrols (P < .003), and metagenomics yielded archaea, mostly methanogens, in 28/32 brain abscess samp

230 factor 1 (MBF1) gene family is well known in archaea, non-lichenized fungi, plants, and animals, and

231 me and that a specific group of methanogenic archaea of the order Methanomicrobiales is highly sensit

232 freshwater enrichment culture, we show that archaea of the order Methanosarcinales, related to "Cand

233 long eukaryotic version is only observed in archaea of the phylum Thaumarchaeota.

234 tested the hypothesis that the abundance of archaea on human skin is influenced by human age and ski

235 ght-membered ring composed of one or two (in Archaea) or eight (in Eukarya) different subunits.

236 ot exist for the acetate kinase in Bacteria, Archaea, or Eukarya.

237 idence has existed for methane metabolism in archaea outside the phylum Euryarchaeota.

238 of redundancies in ribonucleotide repair in archaea perhaps suggests a more ancestral form of ribonu

239 Methanogenic and methanotrophic archaea play important roles in the global flux of metha

240 Bacteria and archaea possess a range of defense mechanisms to combat

241 al Park to investigate whether deeply-rooted archaea possess and express novel mcrA genes in situ.

242 tatistical modelling supported production by archaea, possibly via hybrid N2O formation.

243 hundreds of individual, uncultured bacteria, archaea, protists, and viral particles, obtained directl

244 ontent of four widespread uncultured benthic Archaea recovered from estuary sediments at 48% to 95% c

245 Bacteria and archaea rely on CRISPR (clustered regularly interspaced

246 r, mechanisms regulating iron homeostasis in archaea remain unclear.

247 Small basic proteins present in most Archaea share a common ancestor with the eukaryotic core

248 de of crenactin, a homolog of actin found in archaea, shed light on how the cytoskeleton might have e

249 In bacteria and archaea, short fragments of foreign DNA are integrated i

250 Archaea-specific qPCR yielded archaea in 8/18 brain absc

251 Archaea-specific quantitative (q) PCR and metagenomics w

252 most diverse known populations of uncultured Archaea, specifically the miscellaneous Crenarchaeotal g

253 g repair of misincorporated ribonucleotides, archaea such as Thermococcus rely only upon RNaseH2 to i

254 Cobalamin is produced only by bacteria and archaea, suggesting phytoplankton-bacterial interactions

255 metabolic capabilities of these cosmopolitan Archaea suggests they are mediating key geochemical proc

256 omponents in the Aigarchaeota and the Asgard archaea superphyla has provided a substantive step towar

257 Archaea-targeted PCR sequencing and metagenomics confirm

258 ane cycling (mcrA) is more widespread in the Archaea than previously thought.

259 thanogens are antibiotic-resistant anaerobic archaea that escape routine detection in clinical microb

260 ideal method for quantitative proteomics of archaea that holds promise to unravel gene function.

261 l core set of mostly uncultured bacteria and archaea that is present throughout the sediment column.

262 ongly associated with a distinct root of the Archaea that lies within the Euryarchaeota, challenging

263 However, in hyperthermophilic archaea that live optimally at temperatures above 80 deg

264 d the function of the TFIIEbeta homologue in archaea that on the primary sequence level is related to

265 eota is an abundant and ubiquitous phylum of archaea that plays a major role in the global nitrogen c

266 We found communities dominated by archaea that relied on a single phylotype of Halothece c

267 s spanning 10 phyla/subphyla of bacteria and archaea that were sequenced using standardized RNA-seq m

268 Asgard' superphylum, a group of uncultivated archaea that, as well as Lokiarchaeota, includes Thor-,

269 cal models to describe for the first time in archaea the dynamics of key regulators of archaellum exp

270 rs have been identified among the genomes of Archaea, the mechanisms of archaeal DNA transport have r

271 In many archaea, the oligosacharyltransferase (AglB)-dependent N

272 erotrimeric nature of the PCNA clamp in some archaea, there is potential to occupy and regulate speci

273 In most bacteria and archaea, this process is assured by a broadly conserved

274 Candidatus Methanoperedens spp. archaea thought to perform anaerobic oxidation of methan

275 CRISPR-Cas systems allow bacteria and archaea to acquire sequence-specific immunity against se

276 (CRISPR)-Cas system is used by bacteria and archaea to fend off foreign genetic elements.

277 le in cellular translation in eukaryotes and archaea, to bacterial biofilm formation and specialized

278 indicator of contributions from methanogenic archaea, together with the BIT and TEX86 proxies, can he

279 Bacteria and archaea typically possess small genomes that are tightly

280 We obtained an enrichment culture of these archaea under anaerobic, nitrate-reducing conditions wit

281 For example, bacteria and archaea use [NiFe]-hydrogenases to catalyze the uptake a

282 These results suggest that archaea use bacterial-type TFs in a eukaryotic regulator

283 Bacteria and archaea use CRISPR-Cas adaptive immune systems to defend

284 Archaea use flagella known as archaella-distinct both in

285 haellum is the macromolecular machinery that Archaea use for propulsion or surface adhesion, enabling

286 reconstructed the first complete genomes for Archaea using cultivation-independent methods.

287 nd mineral fingerprints of both Bacteria and Archaea, using these data to constrain the environment i

288 Diverse microbial communities of bacteria, archaea, viruses and single-celled eukaryotes have cruci

289 microbial communities, comprising bacteria, archaea, viruses, and fungi, occupy separate niches in a

290 This makes understanding transcription in archaea vital, both in terms of molecular mechanisms and

291 ile nitrite in the feed and produced by DAMO archaea was jointly removed by Anammox (90%) and DAMO ba

292 ctions on the rooted tree suggest that early Archaea were anaerobes that may have had the ability to

293 associated with anaerobic methane-oxidizing archaea were more enriched in (13)C than those character

294 Archaea were not directly involved in full methane oxida

295 d) was entirely converted to nitrite by DAMO archaea, while nitrite in the feed and produced by DAMO

296 Archaea, while thriving in extreme environments and acco

297 Major radiations of enigmatic Bacteria and Archaea with large inventories of uncharacterized protei

298 Delineating the spatial distribution of archaea with mat depth will enable resolution of putativ

299 The ocean samples were predominantly Archaea, with Euryarchaeota as the dominant phylum.

300 g level occurs in mammalian cells, yeast and archaea, yet it was unknown whether bacteria were capabl