ライフサイエンスコーパス: virome

1 ify up to 90% of reads in viral metagenomes (viromes).

2 erating viral metagenome sequence libraries (viromes).

3 longitudinal quasispecies complexity of the virome.

4 otypes' among this fraction of the human gut virome.

5 unprecedented opportunity to study the human virome.

6 into the effects of immune modulation on the virome.

7 : http://www.ark-genomics.org/bioinformatics/virome.

8 of ultrafilters, are part of the human blood virome.

9 ed with significant expansion of the enteric virome.

10 and functional potential of the Indian Ocean virome.

11 l of SIV-associated expansion of the enteric virome.

12 , the picorna-like viruses, dominate the RNA virome.

13 and how we vaccinate to limit or control our virome.

14 ittle-recognized part of our metagenome: our virome.

15 y understood members of the human-associated virome.

16 the emergence and evolution of the archaeal virome.

17 ss-sectional studies, changes in the enteric virome.

18 hould incorporate examination of the enteric virome.

19 to infect humans or to be part of the human virome.

20 art due to the lack of investigation of tick viromes.

21 nd phage sequences dominated the anoxic core viromes.

22 to sequences present in other environmental viromes.

23 dentify 7-38% of 'unknown' sequence space in viromes.

24 the first time to our knowledge within ssDNA viromes.

25 comprising up to 90% of sequences in the gut virome (4) .

26 mammals is defined in part by our coevolved virome, a concept with profound implications for underst

27 Here, we present viRome, a package for R that takes aligned sequence data

28 e contains a complex microbiome, including a virome about which little is known.

29 Comprehensive virome analysis of RNA sequence (RNA-seq) data sets from

30 overview of the composition of the human gut virome and associate virome structure with diet.

31 Comprehensive untargeted virome and bacterial analyses of pretreatment bone marro

32 We characterized the enteric virome and bacterial microbiome in a cohort of Ugandan p

33 Here, we characterized the gut virome and bacterial microbiome in a longitudinal cohort

34 The virome and bacterial microbiome were more similar betwee

35 s associated with alterations in the enteric virome and bacterial microbiome, which may contribute to

36 dditional microbial symbionts, including the virome and endogenous retroelements.

37 From birth to 2 years of age, the eukaryotic virome and the bacterial microbiome expanded, but this w

38 namic but metastable equilibrium between the virome and the host can be dangerous, benign, or even sy

39 proach for studying interactions between the virome and the immune system.

40 Nonbacterial organisms, particularly the virome and the mycobiome, are important regulators of in

41 obiomes and, for the first time, 42 distinct viromes and show that there are strongly discriminatory

42 spite remarkable interpersonal variations in viromes and their encoded functions, intrapersonal diver

43 the viral taxonomic composition in simulated viromes and viral metagenomes from different benthic dee

44 n 'virobiota' and its associated genes (the 'virome'), and have fostered the emerging field of host-v

45 nded DNA (dsDNA) viral-fraction metagenomes (viromes) and whole viral community morphological data se

46 nomes and virioplankton shotgun metagenomes (viromes), and estimated to occur within >90% of the dsDN

47 ological dark matter extant in the human gut virome, and bring to light a population of potentially g

48 health and disease states of the respiratory virome, and drive a paradigm shift in how the practicing

49 Microbiome, virome, and proteome profiles of donors and patients wer

50 yotic virus sequences dominated the oxycline viromes, and phage sequences dominated the anoxic core v

51 In contrast, viromes are unique to individuals regardless of their de

52 tly healthy cotwins in discordant pairs have viromes associated with, although not necessarily mediat

53 Metagenomic study of mammalian viromes can help trace paths of viral transmissions with

54 rvention was associated with a change in the virome community to a new state, in which individuals on

55 ETSP virome comparison with surface marine viromes (Sargasso

56 cocktail approach to specifically reduce the virome component of the intestinal microbiota.

57 ontraction of and shift in the bacteriophage virome composition.

58 We observe marked virome compositional dynamics at the onset of the therap

59 ess is known about the viral microbiome (or 'virome'), consisting of bacteriophages and eukaryotic RN

60 The virome contains the most abundant and fastest mutating g

61 Here we report a data set of 27,346 marine virome contigs that includes 44 complete genomes.

62 However, whether the enteric virome contributes to this infection and resulting immun

63 es (vSAGs) are more abundant in global ocean virome data sets than published metagenome-assembled vir

64 ication to 32 viromes from the Pacific Ocean Virome dataset identified clusters of samples broadly de

65 ons, and analyse the resulting 'global ocean virome' dataset to present a global map of abundant, dou

66 imprint generated by these responses to our virome defines the normal immune system.

67 retained over the period surveyed, and with viromes dominated by a few temperate phages that exhibit

68 nderstanding of the bacterial microbiome and virome during early development, conditions that might i

69 -generation sequencing to define the enteric virome during SIV infection in nonhuman primates.

70 y bowel diseases or solid-organ transplants, virome dynamics in allogeneic hematopoietic stem cell tr

71 inhabiting the intestine termed "the enteric virome." Enteric viruses have intimate functional and ge

72 abase, phage sequences dominated the surface viromes, eukaryotic virus sequences dominated the oxycli

73 he importance of metagenomic analysis of the virome for understanding AIDS pathogenesis.

74 tools (BLAST, MG-RAST, NBC, VMGAP, MetaVir, VIROME) for analysing the viral taxonomic composition in

75 Here we defined the intestinal virome from birth to the development of autoimmunity in

76 ies, we characterized and compared the fecal viromes from 32 healthy animals, 31 animals with acute d

77 Here, we investigate viromes from human subjects on a controlled feeding regi

78 Application to 32 viromes from the Pacific Ocean Virome dataset identified

79 y 500 genotypes estimated in individual WWTP viromes, > 82% were shared.

80 ibody efficacy was diminished for stationary-virome HVR1 variants.

81 Here, we report the tomato virome identified through sequencing small RNAs of 170 f

82 ead targeted hypervariation in the human gut virome, identify previously undescribed types of genes t

83 Here we characterize the longitudinal gut virome in 44 recipients of HSCT using metagenomics.

84 metagenomic approach, we surveyed the fecal virome in California sea lions of different ages and hea

85 Here, we report the landscape of the tomato virome in China, the leading country in tomato productio

86 sity, and changing nature of the respiratory virome in health and disease.

87 eal an under-appreciated role of the enteric virome in HIV-associated gastroenteritis and pathogenesi

88 investigating the biological role of the gut virome in human physiology, and the importance of our vi

89 Our results demonstrate a complex urinary virome in kidney transplant patients with multiple virus

90 f the composition and diversity of the human virome in physiologically healthy individuals.

91 essants strongly affect the structure of the virome in plasma.

92 We describe here the metagenomics-derived virome in the feces of 24 healthy and 12 diarrheic pigle

93 Less is known about the virome in these diseases.

94 human virome, the current literature on the virome in transplant recipients, and near-future applica

95 In this report, we describe HVR1 viromes in chronically infected patients that are define

96 ng the role of these populations (the human "virome") in health and disease requires a much deeper un

97 ersity and composition of viral communities (viromes) in ballast and harbor waters using metagenomics

98 The mammalian virome includes diverse commensal and pathogenic viruses

99 The analyses of simulated viromes indicate that all the BLAST tools, followed by M

100 cell-free DNA in plasma to investigate drug-virome interactions in a cohort of organ transplant reci

101 Virome interactions with the host cannot be encompassed

102 We conclude that the virome is a candidate for contributing to, or being a bi

103 thereby giving rise to the concept that the virome is a component of the microbiome.

104 We show that the enteric virome is abnormal in CD and UC patients.

105 The mammalian virome is constituted of viruses that infect host cells,

106 The virome is dominated by rare genes, many of which might b

107 The gene composition of the marine DNA virome is dramatically different from that of known bact

108 The virome is mucosal and systemic; it can alter the host re

109 Moreover, it is becoming clear that the virome is part of a dynamic network of microorganisms th

110 viRome is released under the BSD license as a package fo

111 The study of the human virome is still in its infancy, especially with regard t

112 However, the role of the enteric virome is understudied relative to the fast-paced resear

113 acterial microbiome in human health, but the virome is understudied.

114 irus infection, a component of the mammalian virome, is regulated by the counterpoised actions of mul

115 yrosequencing of virus-enriched metagenomes (viromes) isolated from bovine rumen fluid and analysed t

116 rimetric microtiter plate (MTP) systems from ViroMed Laboratories, Inc. (PrimeCapture), CPG, Inc. (Qu

117 scribe the extent and nature of the mosquito virome, little is known about how these viruses persist,

118 data support a model in which changes in the virome may contribute to intestinal inflammation and bac

119 bowel disease and speculate that the enteric virome may play a role in other diseases.

120 e presence of viruses in blood suggests that virome members can traverse mucosal barriers, as indeed

121 vidual and rapid evolution of some long-term virome members.

122 Here we report sequencing of the viromes (metagenomes) of virus-like particles isolated f

123 To understand the soil virome, much work remains.

124 To assess the virome of North American bats, we collected fecal, oral,

125 To explore the plasma virome of persons who inject drugs and to characterize t

126 ted sample when we initiated a survey of the virome of Siberian permafrost.

127 present preliminary characterization of the virome of three common North American bat species, inclu

128 Here, we compared the plasma virome of West African green monkeys to that in their de

129 Intestinal viromes of case subjects were less diverse than those of

130 The viromes of CD and UC patients were disease and cohort sp

131 To characterize the viromes of five widely dispersed plant-pathogenic fungi,

132 We compared the plasma viromes of HIV-infected subjects with low versus high CD

133 y, we characterized six novel viruses in the viromes of laboratory fruit flies and wild populations o

134 natural freshwater systems but distant from viromes of marine and human designed/managed freshwater

135 erence between the two mosquito genera, with viromes of mosquitoes of the Aedes genus exhibiting subs

136 Great Lakes viromes were closely related to viromes of other cold natural freshwater systems but dis

137 gh-throughput sequencing to characterize the viromes of these tick species and identified the presenc

138 In this study, we examined the viromes of three tick species from the United States.

139 wever, the large viral population diversity (virome) of bats has been partially determined for only a

140 s-related pathology; thus, the impact of the virome on health and disease may be even more relevant i

141 Within the ETSP OMZ viromes, only 4.95% of genotypes were shared between sur

142 and observed that changes in the intestinal virome over time differed between cases and controls.

143 dicate that the gut bacterial microbiome and virome play an important role in healthy infant developm

144 The human virome plays important roles in health and immunity.

145 Thus, changes in the intestinal virome preceded autoimmunity in this cohort.

146 Bacterial phylogeny and virome profile analyses of fecal samples from recipients

147 In this study we investigated the urine virome profile of BKV+ and BKV- kidney transplant recipi

148 Metagenomic DNA was purified, and the virome profile was analyzed using metagenomic shotgun se

149 , they generate compelling evidence that the virome provides protection from gut inflammatory conditi

150 R sequences and compared them with 2 588 172 virome reads in the saliva of four human subjects over 1

151 Comparisons of viromes revealed a striking difference between the two m

152 of the viral populations in any global ocean virome sample.

153 The largest source of variance among virome samples was interpersonal variation.

154 ETSP virome comparison with surface marine viromes (Sargasso Sea, Gulf of Mexico, Kingman Reef, Che

155 available for both Windows and Linux http://virome.sf.net.

156 nmental viromes, tBLASTx, MetaVir, VMGAP and VIROME showed a similar efficiency of sequence annotatio

157 An analysis of 24 coral reef viromes showed a relative increase in the abundance of h

158 Species-specific recruitment patterns and virome simulation data suggest that vSAGs are highly mic

159 ent and offer a potential application of the virome state to predict immunocompetence.

160 The core virome structure included herpesviruses, papillomaviruse

161 sition of the human gut virome and associate virome structure with diet.

162 When analysing the environmental viromes, tBLASTx, MetaVir, VMGAP and VIROME showed a sim

163 The Chinese tomato virome that we developed provides valuable information t

164 chnical considerations in studying the human virome, the current literature on the virome in transpla

165 is initial characterization of the bat guano virome, the first metagenomic analysis of viruses in wil

166 ight into the relationship between the human virome, the state of the immune system, and the effects

167 ired respiratory viruses and the respiratory virome to better understand the dynamics in acute infect

168 enders analysis of human viral communities ("viromes") to be highly complex.

169 view of our current understanding of how the virome, together with other components of the microbiome

170 were shared between surface and anoxic core viromes using reciprocal BLASTn sequence comparison.

171 expansion and diversification of the enteric virome was secondary to changes in bacterial populations

172 robial metabolic capabilities encoded by the viromes was extensive, suggesting that they serve as a r

173 te the origin and evolution of the human gut virome, we analyzed the viral community of one adult ind

174 act of this population bottleneck on the AGM virome, we used metagenomics to compare the viral nuclei

175 Specific components of the virome were both directly and inversely associated with

176 t among the Great Lakes, and the Great Lakes viromes were closely related to viromes of other cold na

177 notation-independent comparisons showed that viromes were distinct among the Great Lakes, and the Gre

178 It followed that stationary viromes were dominated by a single HVR1 variant surround

179 versity between the two genera, although the viromes were very similar among the three Culex species

180 e recombination events highlighted a dynamic virome where subpopulations of variants are in competiti

181 levels 4.2-fold higher than other published viromes, while carbohydrate and amino acids metabolisms

182 cterial populations showed covaration of the virome with the larger microbiome.

183 persistence of a small portion of the global virome within the gut of each individual and rapid evolu