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1 92 base pairs it is by far the largest known archaeal genome.
2  to accurately and efficiently replicate the archaeal genome.
3 eins, is widely distributed in bacterial and archaeal genomes.
4 ems in more than 100 sequenced bacterial and archaeal genomes.
5  with operon structure in both bacterial and archaeal genomes.
6 onnected gene neighborhoods in bacterial and archaeal genomes.
7 d this method to several other bacterial and archaeal genomes.
8 onserved in all or most of the bacterial and archaeal genomes.
9 n the unannotated regions of prokaryotic and archaeal genomes.
10 ction systems in the sequenced bacterial and archaeal genomes.
11 comparative genome analysis of the sequenced archaeal genomes.
12 homologous counterparts in the four complete archaeal genomes.
13 idered the evolutionarily stable core of the archaeal genomes.
14 ed by the completely sequenced bacterial and archaeal genomes.
15  the topological state of bacterial and some archaeal genomes.
16 ows modification of phylogenetically diverse Archaeal genomes.
17 ative DNA polymerase for duplication of most archaeal genomes.
18 putative encapsulin systems in bacterial and archaeal genomes.
19  sites and reconstructed RbkR regulons in 94 archaeal genomes.
20 probable horizontal origin) in bacterial and archaeal genomes.
21 transposons present in diverse bacterial and archaeal genomes.
22 over 1000 completely sequenced bacterial and archaeal genomes.
23 ne content and gene order similarity between archaeal genomes.
24  was built in 2008 to annotate bacterial and archaeal genomes.
25 ensus of CRISPR-Cas systems in bacterial and archaeal genomes.
26 en assumed that Pol B enzymes also replicate archaeal genomes.
27 the phylogeny of all available bacterial and archaeal genomes.
28 orresponding chemoreceptors in bacterial and archaeal genomes.
29 nts of the MVA pathway are often absent from archaeal genomes.
30 ir phylogenetic distribution among available archaeal genomes.
31 e functional annotation of new bacterial and archaeal genomes.
32 rtitioning technique to all proteins from 53 archaeal genomes.
33 omplete and publicly available bacterial and archaeal genomes.
34 tomated service for annotating bacterial and archaeal genomes.
35 s of GTPCHI have not been identified in most archaeal genomes.
36  one-component proteins in 365 bacterial and archaeal genomes.
37 eins from completely sequenced bacterial and archaeal genomes.
38 switch elements from the whole bacterial and archaeal genomes.
39 e target aptamer structures in bacterial and archaeal genomes.
40 notated as a selenocysteine synthase gene in archaeal genomes.
41 more than 15% of all sequenced bacterial and archaeal genomes(1,6,7), but the molecular basis of how
42 ularly critical for gene-dense bacterial and archaeal genomes(1-3) in which continued transcription w
43 naschii, Methanosarcina acetivorans (largest Archaeal genome, 5.8 Mb), and yeast.
44 we report the analysis of 1,167 nonredundant archaeal genomes (608 high-quality genomes) recovered fr
45              This taxonomy is based on 2,392 archaeal genomes, 93.3% of which required one or more ch
46                                    These two archaeal genomes also have only one identifiable gene en
47 y available and user-submitted bacterial and archaeal genome and contig sources.
48 (NCBI) contains nearly 200 000 bacterial and archaeal genomes and 150 million proteins with up-to-dat
49 n (NCBI) contains over 315 000 bacterial and archaeal genomes and 236 million proteins with up-to-dat
50 ucts from each of the complete bacterial and archaeal genomes and approximately 35% of those from the
51 viral and transposon genes) in bacterial and archaeal genomes and demonstrated statistically signific
52 stone sequences have been identified in many archaeal genomes and in environmental samples, and they
53                                              Archaeal genomes and metagenome-assembled genomes (MAGs)
54 sable elements present in most bacterial and archaeal genomes and play an important role in genomic e
55 e below the photic zone, where bacterial and archaeal genomes and proteomes undergo a community-wide
56 in systems are ubiquitous in prokaryotic and archaeal genomes and regulate growth in response to stre
57 we identify eCIS loci in 1,249 bacterial and archaeal genomes and reveal an enrichment of these loci
58 s been observed previously for bacterial and archaeal genomes () and reveal a trimodality in eukaryot
59 all index (4.2 GB for 4078 bacterial and 200 archaeal genomes) and classifies sequences at very high
60  pairs of completely sequenced bacterial and archaeal genomes, and for each genome a template-anchore
61 Spt4-Spt5 complex are universally encoded in archaeal genomes, and here we demonstrate that both elon
62  method was used to analyze 34 bacterial and archaeal genomes, and yielded more than 7600 pairs of ge
63 upporting the gene-regulatory repertoires of archaeal genomes are briefly noted.
64                                Consequently, archaeal genomes are depleted of transcriptional regulat
65 yotic RNA polymerase (RNAP) II system, while archaeal genomes are more similar to bacteria with dense
66                                              Archaeal genomes are nearly devoid of RT in any form.
67   Functionally linked genes in bacterial and archaeal genomes are often organized into operons.
68                           We review here how archaeal genomes are organized and how such organization
69                                              Archaeal genomes are particularly rich in such sequences
70 t, the transcriptional regulators encoded by archaeal genomes are primarily of bacterial rather than
71                                      As more archaeal genomes are sequenced, effective research and a
72                                              Archaeal genomes are typically small, circular, gene den
73 on and DNA repair for the maintenance of the archaeal genome at high temperatures.
74 are now nearly 1,000 completed bacterial and archaeal genomes available, most of which were chosen fo
75 ogeny of 10,575 evenly-sampled bacterial and archaeal genomes, based on a comprehensive set of 381 ma
76 s and detailed analysis of conserved motifs, archaeal genomes become as amenable to meaningful interp
77 et can be viewed in genomic context with the Archaeal Genome Browser at archaea.ucsc.edu.
78                                     The UCSC Archaeal Genome Browser offers a graphical web-based res
79           CCD genes are also present in some archaeal genomes, but the encoded enzymes remain uninves
80 t abundant proteins encoded in bacterial and archaeal genomes, but whose functions in the transposon
81 pathway except shikimate kinase are found in archaeal genomes by sequence homology to their bacterial
82 g the gene order in the completely sequenced archaeal genomes complemented by sequence profile analys
83                The majority of bacterial and archaeal genomes contain 6-14% non-coding DNA.
84                           Most bacterial and archaeal genomes contain many genes with little or no si
85 lf-targeting CRISPR spacers in bacterial and archaeal genomes containing Acr-encoding proviruses.
86                     Computer analysis of the archaeal genome databases failed to identify orthologues
87                                  Analyses of archaeal genomes did not reveal the presence of genes en
88                                     Although archaeal genomes encode a diverse set of type IV pilus s
89                       Numerous bacterial and archaeal genomes encode from one to eight HicAB modules
90                                However, many archaeal genomes encode more than one TFB and/or TBP lea
91 ysis revealed that many of the bacterial and archaeal genomes encode motifs that may be involved in m
92 n silico analyses showed that most sequenced archaeal genomes encode predicted pilins and conserved p
93                                          All archaeal genomes encode RNA polymerase (RNAP) subunits E
94                                Bacterial and archaeal genomes encompass numerous operons that typical
95 logs of the 321-aa protein were found in all archaeal genomes examined, but not in eukaryotic or bact
96                                              Archaeal genomes feature a strong Shine-Dalgarno ribosom
97 gulating proteins has been identified in the archaeal genome, few of them have been studied at the mo
98  approach that searched completely sequenced archaeal genomes for a kinase-like protein with a patter
99 to be present in the sequenced bacterial and archaeal genomes from GenBank.
100       Here we recovered 43,191 bacterial and archaeal genomes from publicly available marine metageno
101          The reconstruction of bacterial and archaeal genomes from shotgun metagenomes has enabled in
102 f PHX ribosomal protein (RP) genes where the archaeal genome generally encodes more RP genes and fewe
103                  Sequencing of bacterial and archaeal genomes has revolutionized our understanding of
104 er, less than 100 circularized bacterial and archaeal genomes have been assembled and published from
105 intriguing as: (i) bioinformatic searches of archaeal genomes have not identified lipoprotein biogene
106           Over 3000 microbial (bacterial and archaeal) genomes have been made publically available to
107  genome was sequenced in 1995, and the first archaeal genome in 1996.
108 ale scan of complete and draft bacterial and archaeal genomes in the NCBI RefSeq database reveals tha
109 ort-read sequencing data (4644 bacterial and archaeal genomes including 12,006 plasmids).
110                 Analysis of 26 bacterial and archaeal genomes indicates that the degree of clustering
111 y available draft and finished bacterial and archaeal genomes into quality-controlled clades, reports
112 he bza gene content of several bacterial and archaeal genomes is consistent with experimentally deter
113      A substantial fraction of bacterial and archaeal genomes is dedicated to antivirus defense.
114 tify noncoding RNA elements in bacterial and archaeal genomes is hampered by the difficulty of de nov
115               The evolution of bacterial and archaeal genomes is highly dynamic and involves extensiv
116                   Evolution of bacterial and archaeal genomes is highly dynamic, including extensive
117 attern of single-copy genes in bacterial and archaeal genomes is the presence of 1-15 copies of each
118                                              Archaeal genomes lack a recognizable peptidyl-tRNA hydro
119 e cobinamide has been under question because archaeal genomes lack orthologs to the bacterial nucleos
120 undreds of sequenced bacterial and dozens of archaeal genomes leads to several generalizations on the
121 ce of two components of the MVA pathway from archaeal genomes led to the discovery of an alternative
122       Here I describe recent developments in archaeal genome maintenance, including investigations of
123       The absence of strand asymmetry in the archaeal genomes may reflect the presence of multiple or
124                       For each bacterial and archaeal genome, MiST 3.0 provides a complete signal tra
125 acterium Synechocystis sp. genome nor in the archaeal genomes of Methanococcus jannaschii, Methanobac
126 ranscription-associated proteins in the four archaeal genomes, of which 168 have homologs only in Bac
127      OASIS annotations of 1737 bacterial and archaeal genomes offered an unprecedented opportunity to
128           The browser currently contains 115 archaeal genomes, plus 31 genomes of viruses known to in
129                          Small bacterial and archaeal genomes provide insights into the minimal requi
130 for 55 species, including 16 bacterial and 4 archaeal genomes representing phylogenetically diverse l
131 approximately 90% of sequenced bacterial and archaeal genomes, respectively, and evolve rapidly, acqu
132 n 36 groups of closely related bacterial and archaeal genomes reveals purifying selection affecting A
133                     Our sequence analysis of archaeal genomes reveals that the highly conserved ribos
134 served differences between the four complete archaeal genomes seem to reflect disparate approaches to
135                  The amount of bacterial and archaeal genome sequence and methylome data has greatly
136                                Each complete archaeal genome sequence contains a homolog of this arch
137 d Synechocystis sp., and the first available archaeal genome sequence, that of Methanococcus jannasch
138                             None of the four archaeal genomes sequenced to date contain open reading
139                              As all complete archaeal genome sequences contain an MTH1669 homolog, th
140 e reconstructed virus and host bacterial and archaeal genome sequences from community genomic data fr
141 tic code usage of over 250,000 bacterial and archaeal genome sequences in GenBank and discovered five
142                    The analysis of completed archaeal genome sequences led to the identification of a
143 haeal histones do not have histone tails and archaeal genome sequences provide no evidence for archae
144             In addition, of the six complete archaeal genome sequences published so far, five are the
145 Consortium (GSC) for reporting bacterial and archaeal genome sequences.
146 k for all bacterial genomes and one of three archaeal genomes sequences to date, confirming known or
147 ny areas of molecular biology, the advent of archaeal genome sequencing has now drawn researchers to
148                      In addition, seven more archaeal genome sequencing projects are under way, inclu
149                    A survey of bacterial and archaeal genomes shows that many Tn7-like transposons co
150 veal the presence of Gms homologs in diverse archaeal genomes spanning all four archaeal superphyla a
151 re is no enrichment of STRs in bacterial and archaeal genomes, suggesting that these genomes are not
152 ive inoviruses were also detected in several archaeal genomes, suggesting that, collectively, members
153 ransfer rates across available bacterial and archaeal genomes supports that the barriers observed in
154 iptional regulators encoded in bacterial and archaeal genomes that control gene expression in metabol
155 sable elements present in most bacterial and archaeal genomes that play an important role in genomic
156  collection of closely related bacterial and archaeal genomes that provides several tools to aid rese
157 kflow that enabled assembly of bacterial and archaeal genomes that were at least 80% complete.
158 resent in 32% of all sequenced bacterial and archaeal genomes, that mediate protection against specif
159                                In almost all archaeal genomes, the xpb gene lies adjacent to a conser
160 s were obtained for the poorly characterized archaeal genomes; these include a previously uncharacter
161 s the signs of complexity observed in Asgard archaeal genomes to the proposed role of mitochondria in
162 yses of completely sequenced prokaryotic and archaeal genomes, together with their annotations.
163 ill facilitate the analysis of bacterial and archaeal genomes using ecological and evolutionary theor
164 ces in recovering eukaryotic, bacterial, and archaeal genomes using Hi-C contact maps, few of Hi-C-ba
165                              Since the first archaeal genome was sequenced, much attention has been f
166                          The coverage of the archaeal genomes was only slightly lower than that of ba
167 ess of analysing the four available complete archaeal genomes, we have noted that certain regions cha
168 nce comparisons among complete bacterial and archaeal genomes, we have uncovered a putative MIG prote
169 iple groups of closely related bacterial and archaeal genomes, we obtained robust estimates of the ge
170 34 clusters of closely related bacterial and archaeal genomes, we show here that terminal branches of
171           By expanding our analysis to 7,012 archaeal genomes, we suggest that CRISPR-Cas targeting o
172 kinase, and pyrophosphohydrolase families in archaeal genomes were evaluated as candidate enzymes for
173                          Eight of the eleven archaeal genomes were from microbial species without pre
174                  Historically, bacterial and archaeal genomes were reconstructed from pure (monoclona
175                                          All archaeal genomes which have been sequenced are predicted
176 ins 966 complete and 157 draft bacterial and archaeal genomes, which collectively contain more than 2
177                     Here we report the first archaeal genome-wide nucleosome occupancy map, as observ

 
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