ライフサイエンスコーパス: coevolutionary

1 y partitioned niches, although not simply by coevolutionary adaptation and niche packing as is often

2 Coevolutionary adaptation between humans and helminths h

3 Here we show how coevolutionary adaptation of a specific enzyme in the fu

4 h exposure to gammaretrovirus infections and coevolutionary adaptations in the viral envelope.

5 we hypothesize that herbivores may not show coevolutionary adaptations, but instead "chase" hosts ba

6 dular Python package makes the full power of coevolutionary analyses available to entry-level and adv

7 Biochemical, virological, and coevolutionary analyses combined with molecular dynamics

8 responsible for the different results among coevolutionary analyses of different proteins.

9 hR lipid sensing, we used homology modeling, coevolutionary analyses, site-directed mutagenesis, and

10 functioning of BdTGD1 in Arabidopsis tgd1-1 Coevolutionary analysis and coimmunoprecipitation assays

11 Coevolutionary analysis and deep-learning (DL)-based pro

12 tomistic and coarse-grained simulations with coevolutionary analysis and network modeling of the resi

13 results extend the potential applications of coevolutionary analysis far beyond cases treatable so fa

14 We present a gene-culture coevolutionary analysis of a small selection of such rul

15 We conclude that coevolutionary analysis of cross-species protein interac

16 so peptides identified in GenBank to perform coevolutionary analysis of two requisite biosynthetic pr

17 rality of the lack of polarity, we performed coevolutionary analysis on a large set of sequences.

18 We show that sequence-based coevolutionary analysis systematically identifies residu

19 nces in protein dynamics, network theory and coevolutionary analysis that have provided foundation fo

20 d examples of the application of prokaryotic coevolutionary analysis to the prediction of eukaryotic

21 We addressed this debate with a coevolutionary analysis, by examining genes for CB1, CB2

22 atistical modeling approaches to genome-wide coevolutionary analysis, far beyond the established use

23 rometry, AlphaFold structure prediction, and coevolutionary analysis, we identify armadillo-like heli

24 en-source application and Python package for coevolutionary analysis.

25 ion between biology and culture was probably coevolutionary and bidirectional: life-history changes a

26 robust convergence to criticality emerges in coevolutionary and coadaptive setups in which individual

27 with the inoculation results, suggests that coevolutionary and competitive processes may be drivers

28 can strongly affect communities, via complex coevolutionary and eco-evolutionary dynamics, which infl

29 We used coevolutionary and positive-selection analyses to charac

30 Coevolutionary antagonism generates relentless selection

31 These data suggest that coevolutionary antagonistic interactions between Fusariu

32 Coevolutionary approaches hold promise for injecting new

33 Decades of research have shown that the coevolutionary arms race between avian brood parasites a

34 Adding another twist to the coevolutionary arms race between moths and bats, these r

35 contributions to the overall dynamics of the coevolutionary arms race between newts and snakes.

36 ow into the molecules and organs used in the coevolutionary arms race between predator and potential

37 a reciprocal selective pressure suggesting a coevolutionary arms race that shapes both ectoparasites

38 ntiviral immunity that is likely to entail a coevolutionary arms race with rapidly evolving viruses.

39 nvaders, giving microbes an advantage in the coevolutionary arms race with their invaders.

40 riable resistance to tetrodotoxin (TTX) in a coevolutionary arms race with their toxic prey, newts of

41 -level variation in toxicity attributed to a coevolutionary arms race with TTX-resistant predatory sn

42 e no longer effective, a process dubbed the 'coevolutionary arms race'.

43 symbiont interface are predicted to follow a coevolutionary arms race, as observed for genes governin

44 Here we report the next stage in this coevolutionary arms race, using the Illumina GAIIx platf

45 lence of avian brood parasites can trigger a coevolutionary arms race, which favours rejection of par

46 tors have an advantage against phages in the coevolutionary arms race.

47 sts and inspired the durable metaphor of the coevolutionary arms race.

48 Our model suggests that accounting for coevolutionary arms races at the predator-prey detection

49 phenotypic and genetic levels, characterizes coevolutionary arms races between amphibians and their s

50 Coevolutionary arms races between brood parasites and ho

51 Coevolutionary arms races between species can favor exag

52 Extortion strategies do particularly well in coevolutionary arms races between two distinct populatio

53 tions with pathogens are expected to undergo coevolutionary arms races in which plant specificity and

54 c Mosaic Theory of Coevolution predicts that coevolutionary arms races will vary over time and space

55 arisen in several species of snakes through coevolutionary arms races with toxic amphibian prey, whi

56 Others contend that selection, including coevolutionary arms races, can systematically push organ

57 To understand parasite-host coevolutionary arms races, many studies have examined ho

58 Coevolutionary arms races, where adaptations in one part

59 ps, perhaps reflecting ongoing host-parasite coevolutionary arms races.

60 icted by Ehrlich and Raven's plant-herbivore coevolutionary arms-race hypothesis, and tested whether

61 Thus, the attine symbiosis appears to be a coevolutionary "arms race" between the garden parasite E

62 ain fitness advantage during a host-parasite coevolutionary "arms race."

63 ruses and host RNAi may represent an ancient coevolutionary "arms race." This could lead to strong di

64 Furthermore, there is a fundamental coevolutionary asymmetry between plants and their herbiv

65 ass extinction is the coincidence of a large coevolutionary avalanche in the ecosystem with a severe

66 a purely biotic mechanism as the result of "coevolutionary avalanches".

67 ry ecology model and find the conditions for coevolutionary branching and relevant dimensionless para

68 current approaches, especially culture-gene coevolutionary (CGC) approaches, have neglected them.

69 only a handful of examples where reciprocal coevolutionary change has been rigorously established as

70 netic correlations may determine the pace of coevolutionary change, affect species abundances and fue

71 components of molecular systems involved in coevolutionary change.

72 Niche-based theories propose that coevolutionary changes among species lead to character d

73 tribution, and the potential consequences of coevolutionary changes in pathogen-host relationships fo

74 e adaptive diversification of colors and the coevolutionary chase at the putative algae-protein bindi

75 ed that sexual conflict can drive an endless coevolutionary chase between the sexes potentially leadi

76 I show that a cyclic coevolutionary chase is possible under a broad range of

77 Female diversification brings coevolutionary chase to the end.

78 showing that the two sexes are locked in a "coevolutionary chase" that could be driven by processes

79 ed covariation networks, indicating frequent coevolutionary/compensatory changes in the context of pr

80 hat the host and pathogen may be locked in a coevolutionary conflict at these loci, where attempts to

81 the need for more holistic research into the coevolutionary consequences when multiple adaptations an

82 riation networks analysis, emphasizing local coevolutionary constraints.

83 In a wider coevolutionary context, our framework also shows that th

84 system to this end because they encompass a coevolutionary continuum of interactions ranging from mu

85 s this question, we introduce here a general coevolutionary coupling analysis strategy and apply it t

86 istance approach was able to leverage global coevolutionary coupling patterns comprised of multiple c

87 on between protein physico-chemistry and the coevolutionary couplings that can be derived from MSAs.

88 cal inference framework used to infer direct coevolutionary couplings, in the context of protein/nucl

89 chemical diversity is thought to result from coevolutionary cycles as specialization in herbivores im

90 to differences in the phase of host-parasite coevolutionary cycles, although higher hm2 diversity in

91 7803 and the virus (RIM8) underwent multiple coevolutionary cycles, leading to the rapid diversificat

92 le strategies or runaway selection, and when coevolutionary cycling between high and low levels of ho

93 choosiness and parasite virulence or indeed coevolutionary cycling of both traits.

94 In this paper we combine coevolutionary data and molecular dynamics simulations t

95 Here, by projecting coevolutionary data for 511,114 orthogroups across 1,929

96 Results on simulated coevolutionary data indicate that the BMM method can suc

97 evance of these findings with respect to the coevolutionary dynamic operating between genomic element

98 ssion and selection, and their effect on the coevolutionary dynamics and final states of interacting

99 ere we introduce an approach that integrates coevolutionary dynamics and network structure.

100 We suggest that coevolutionary dynamics are associated with the nature o

101 ereas molecular traits associated with rapid coevolutionary dynamics are more labile at branch tips.

102 arise generically from an instability of the coevolutionary dynamics between genome composition and r

103 on studies evaluating land-use histories and coevolutionary dynamics between humans and plants focus

104 esistance provides a window into the ongoing coevolutionary dynamics between plants and herbivores an

105 In addition, comparing coevolutionary dynamics between similar systems may reve

106 to competition from the invader, suggesting coevolutionary dynamics between the species.

107 predictably and generally affect qualitative coevolutionary dynamics by both direct and indirect (med

108 city within species, it is not known whether coevolutionary dynamics differ among functionally simila

109 We discuss challenges for measuring coevolutionary dynamics in species-rich communities, and

110 Identifying different types of coevolutionary dynamics is important for understanding b

111 e impact of community complexity on pairwise coevolutionary dynamics is theoretically dependent on th

112 nd theoretical framework for analyzing rapid coevolutionary dynamics of bacteriophage and bacteria in

113 e toxins is fundamental to understanding the coevolutionary dynamics of competing organisms.

114 velop a simple mathematical model describing coevolutionary dynamics of male and female traits involv

115 we propose a mathematical model to study the coevolutionary dynamics of phenotypic diversity and cont

116 Our data reveal coevolutionary dynamics of reproductive traits between t

117 tor which in turn allows us to determine the coevolutionary dynamics of the system.

118 ore interactions have evolved in response to coevolutionary dynamics, along with selection driven by

119 ches to plant defense, trophic interactions, coevolutionary dynamics, food security and resource mana

120 to impose powerful and continuing effects on coevolutionary dynamics, if that structure creates selec

121 show how phase transitions emerge from such coevolutionary dynamics, which can be interpreted as pro

122 little about how the environment influences coevolutionary dynamics.

123 Pathogen identity affected coevolutionary dynamics.

124 gene flow across a landscape can shape local coevolutionary dynamics.

125 the immunity network plays a key role in the coevolutionary dynamics.

126 ing plant and insect molecular genetics with coevolutionary ecology.

127 el of mass extinction which does not rely on coevolutionary effects and in which extinction is caused

128 Furthermore, evolutionary and coevolutionary effects on species-level and community-le

129 igate parasites, and pathogens which act as 'coevolutionary engines' within each fragment, accelerati

130 These dynamics alter the coevolutionary environments that mutualists experience(6

131 In this particular system we find that the coevolutionary equilibrium is always stable and that hos

132 enses or "legacy adaptations" that prevented coevolutionary escalation.

133 These are all coevolutionary events and spread out through time during

134 atric human populations identified potential coevolutionary events between host and pathogen.

135 ively, these results reveal the existence of coevolutionary events during persistent HCV infection th

136 showed both arms race escalation and strong coevolutionary fluctuation in toxin concentrations acros

137 al geometry of the network, suggesting a new coevolutionary framework for biological, geomorphologica

138 This review explores a coevolutionary framework for the study and management of

139 Herein, we introduce a coevolutionary framework to computationally unveil nonob

140 onjugation can only be fully understood in a coevolutionary framework.

141 re has been growing interest in the study of coevolutionary games on networks.

142 functional co-diversification throughout its coevolutionary history (~75 million years).

143 12S ribosomal DNA and ND2 sequences to infer coevolutionary history for ASLVs and their hosts.

144 hylogenetic analyses indicate that this long coevolutionary history includes a third symbiont lineage

145 ding the diversification of the bees and the coevolutionary history of bees and angiosperms requires

146 two phages was very high, independent of the coevolutionary history of the bacteria.

147 Thus, differences in the coevolutionary history of wing and body lice can be expl

148 ibit low fitness due to their lack of recent coevolutionary history.

149 on should focus on its underlying processes: coevolutionary hot and cold spots, selection mosaics and

150 n hypothesis, in that sex is associated with coevolutionary hot spots for virulent parasites.

151 here sexual reproduction is most common, are coevolutionary hot spots, and that deeper habitats are c

152 can produce selection mosaics manifested as coevolutionary "hot spots" and "cold spots".

153 that structure creates selection mosaics and coevolutionary hotspots across landscapes.

154 ow a long-term shifting geographic mosaic of coevolutionary hotspots and coldspots.

155 A major challenge to investigating coevolutionary hypotheses and conducting molecular ecolo

156 and punishment; we discuss key culture-gene coevolutionary hypotheses, such as those surrounding sel

157 , Curculio camelliae, provides support for a coevolutionary hypothesis but fails to preclude the poss

158 Consistent with the coevolutionary hypothesis, there is some evidence that d

159 was a key prediction of Ehrlich and Raven's coevolutionary hypothesis, yet has remained largely unte

160 on about the globular subdomains, along with coevolutionary information and an energy landscape optim

161 plored with modular repressors designed with coevolutionary information.

162 have long provided a spectacular example of coevolutionary integration.

163 Two potential outcomes of a coevolutionary interaction are an escalating arms race a

164 te in generating a geographic mosaic in this coevolutionary interaction on the landscape scale.

165 tionary units within networks and uncovering coevolutionary interactions among pathogens of humans, l

166 concerning the space and time dimensions of coevolutionary interactions and their influence on popul

167 Coevolutionary interactions are strong enough to cause c

168 Coevolutionary interactions are thought to have spurred

169 to particular insect orders suggests ancient coevolutionary interactions between baculoviruses and th

170 volutionary dynamics, potentially reflecting coevolutionary interactions between host and symbiont.

171 We examined the coevolutionary interactions between plants (Brassicales)

172 Red Queen dynamics, involving coevolutionary interactions between species, are ubiquit

173 and has the potential to dramatically shape coevolutionary interactions between viruses and their mi

174 However, because coevolutionary interactions can be highly divergent acro

175 Interspecific coevolutionary interactions can result in rapid biotic a

176 biotic production in mediating cross-kingdom coevolutionary interactions has received relatively litt

177 sults from localized outcomes of the dynamic coevolutionary interactions of populations with their pa

178 toward linking the selective consequences of coevolutionary interactions to geographic and phylogenet

179 add to our understanding of these important coevolutionary interactions using an experimental host-p

180 y played by species-specific factors such as coevolutionary interactions with specialized pathogens.

181 Coevolutionary interactions, from the delicate co-depend

182 PAP) analysis in Ecdysozoa further indicates coevolutionary linkages among CDCA7, HELLS, DNMT1 and it

183 A coevolutionary Markov model for codon substitution is al

184 lity to learn and directly fuse a triplet of coevolutionary matrices extracted from the whole-genome

185 We show that the Coevolutionary-Matrix method can detect greater number o

186 tions, we introduce a novel technique called Coevolutionary-Matrix that captures co-evolution between

187 Support for a coevolutionary mechanism remains elusive because we lack

188 of sex pheromones, little is known about the coevolutionary mechanisms and constraints on their produ

189 We have developed a coevolutionary method for the computational design of HI

190 ur quantitative benchmarking showed that all coevolutionary methods clearly benefit from alignments w

191 Here we develop a general coevolutionary model between host mate preference and th

192 ere we explicitly address this issue using a coevolutionary model of cooperation and partner rewiring

193 A coevolutionary model of mutualism finds that HS are unli

194 Then, we use a coevolutionary model to illustrate how shifts in the mag

195 e coevolution by coupling a well-established coevolutionary model to spatially structured phenotypic

196 Here, using an eco-coevolutionary model, we show that predator-prey coevolu

197 omputational task on its own; application of coevolutionary modeling has, in turn, been restricted to

198 nfecting deltaviruses were paraphyletic, and coevolutionary modeling rejected cospeciation with mamma

199 hout multi-year simulations, we term this a "coevolutionary" modeling framework.

200 Our results suggest that coevolutionary models may be able to elucidate complex c

201 Coevolutionary models suggest that herbivores drive dive

202 rical niche development as a result of prior coevolutionary molding of competitive ability determines

203 Domestication is defined as a distinctive coevolutionary, mutualistic relationship between domesti

204 an be considered as the construction of many coevolutionary niches by the network of interactions bet

205 c interactions may be incidental rather than coevolutionary or escalatory in nature.

206 l tool, and provides insight on the possible coevolutionary origins of aesthetics and the addiction p

207 However, coevolutionary oscillations generated by frequency-depen

208 tive abundances are determined by the labile coevolutionary outcomes of interactions with specialized

209 s suggest that sperm and egg proteins may be coevolutionary partners that can alternate between direc

210 Coevolutionary pathways of indirect effects favour ongoi

211 that the microbiota can alter host-parasite coevolutionary patterns and processes.(7) Here, using an

212 sight into how context dependence can affect coevolutionary patterns even within individual proteins,

213 yse large libraries designed on the basis of coevolutionary patterns.

214 From the coevolutionary perspective, our work may help explain th

215 y deep residual neural networks coupled with coevolutionary precision matrices.

216 dynamics of chemically defended animals and coevolutionary predator-prey and mimic-model relationshi

217 ion for cheating as a source of antagonistic coevolutionary pressure in mutualism and a biological di

218 ntial mutation rates across genes may be the coevolutionary pressure of the various forms of interact

219 Crop domestication arises from a coevolutionary process between plants and humans, result

220 ame theory and explore the ways in which the coevolutionary process determines the allocation of bene

221 Our results shed light on the coevolutionary process in simple communities and have pr

222 vidence of the female's participation in the coevolutionary process is critically needed.

223 COA involves an eco-coevolutionary process whereby natural selection favors

224 ially biasing our overall perspective of the coevolutionary process.

225 s model systems for studying such reciprocal coevolutionary processes [2, 3].

226 w game theoretical approach to model complex coevolutionary processes and apply it to pollination net

227 Thus, gaining a better understanding of the coevolutionary processes between interacting species is

228 Dynamic coevolutionary processes between the signals and their e

229 d by the Red Queen theory, which states that coevolutionary processes favor rapid rates of evolution,

230 n excellent model for decoding the intricate coevolutionary processes of host-pathogen interaction.

231 These coevolutionary processes promote the emergence of comple

232 ction, and intramolecular and intermolecular coevolutionary processes with OXT were also detected.

233 rred to as the "old friends") were tasked by coevolutionary processes with training the human immune

234 rasite species-specific predictions for many coevolutionary processes, they also illustrate the compl

235 ns in host-symbiont systems raise intriguing coevolutionary questions and may influence the effective

236 graecum sesquipedale, Darwin proposed that a coevolutionary 'race' had driven the directional increas

237 ur findings support the existence of a novel coevolutionary relation between carnivores and their par

238 analysis provides a novel perspective on the coevolutionary relationship between HLA class I molecula

239 rmore, we provide insights into the intimate coevolutionary relationship between the regulator (Dip2)

240 Here we establish a previously unknown coevolutionary relationship in 94 amniote species betwee

241 tly, it is unknown whether this function and coevolutionary relationship is unique to KZNFs or is a b

242 In order to reduce the complexity of coevolutionary relationships and identify the primary co

243 ng to their diversification, we investigated coevolutionary relationships between amoA, a conserved m

244 These results suggest that coevolutionary relationships between human sociality, la

245 Furthermore, the physical and coevolutionary relationships between Imp and Syp binding

246 These methods are based on the detection of coevolutionary relationships between residues from multi

247 ary novelty; however, the development of new coevolutionary relationships may act to integrate exotic

248 nes Cas9, a Hamiltonian metric obtained from coevolutionary relationships reveals, to our knowledge,

249 However, the potential for coevolutionary rescue of competing populations is likely

250 rved confluence of dynamics correlations and coevolutionary residue couplings with global networking

251 poration of dynamic residue correlations and coevolutionary residue dependencies in the construction

252 an adaptation in one sex selects an opposing coevolutionary response from the other.

253 sion, other genes may evolve imprinting as a coevolutionary response to match the expression pattern

254 tions among species force us to consider the coevolutionary responses of species to environmental cha

255 tness and evolvability will emerge in common coevolutionary scenarios.

256 ogen specialization are both consistent with coevolutionary selection and functionally relevant in sp

257 s, demonstrating that the local structure of coevolutionary selection can remain stable across multip

258 ABC method accurately infers the strength of coevolutionary selection if reliable estimates are avail

259 Here we confirm that current coevolutionary selection in interspecific interactions c

260 BC) approach for estimating the intensity of coevolutionary selection using population mean phenotype

261 stinctive features of humans are products of coevolutionary selection.

262 cable tools for quantifying the intensity of coevolutionary selection.

263 s, variable abiotic environments, and strong coevolutionary selection.

264 g before or after the origin of the putative coevolutionary selective pressure must be attributed to

265 Coevolutionary sequence analysis has become a commonly u

266 oth coarse-grained and atomistic models with coevolutionary sequence analysis to shed light on this p

267 Here we investigate a possible coevolutionary sequence triggered by mate desertion in t

268 y of signal characters are consistent with a coevolutionary sexual selection mechanism, but the absen

269 ing its origin and finds a surprisingly weak coevolutionary signal between a supposedly sexually anta

270 nteracting proteins have, on average, higher coevolutionary signal compared with the regions outside

271 istics are calculated to determine whether a coevolutionary signal exists in the mapping.

272 site contacts yield a significantly greater coevolutionary signal than interdomain non-contacts, an

273 As in previous studies, a strong overall coevolutionary signal was detected, and coevolution with

274 for biologically relevant interactions, the coevolutionary signal was strongest in the transmembrane

275 emaining domain sequence still contains some coevolutionary signal.

276 n the other hand, is distinguished by strong coevolutionary signals (with the SBD) exhibited by a ser

277 The second coevolutionary signature is acquisition, referring to th

278 Here, we hypothesize that coevolutionary signatures are being missed.

279 ties of the residue interaction networks and coevolutionary signatures may be linked with specificity

280 Here, we identify three coevolutionary signatures that characterize holobiont ge

281 fense as an antiparasite adaptation, and its coevolutionary significance remains poorly understood [1

282 As coevolutionary specialization increases and spatial scal

283 ic to Cuba, suggesting both lack of pairwise coevolutionary specificity in ant/cultivar interactions

284 results suggest that a fine-tuned one-to-one coevolutionary state between a flower species and a poll

285 We here describe a fine-tuned coevolutionary state of a flower-visiting bee that colle

286 populations retain a genetic record of past coevolutionary states.

287 lity expanded later to all 20 AAs based on a coevolutionary strategy of the genetic code and on a phy

288 Classic coevolutionary syndromes such as plant-pollinator, plant

289 Coevolutionary theories and developmental systems theori

290 Here, we integrate quantitative genetics, coevolutionary theory and network science to explore how

291 Recent coevolutionary theory has indicated that the geographic

292 Coevolutionary theory predicts that the distribution of

293 Coevolutionary theory proposes that the diversity of che

294 y evaluate various predictions based on this coevolutionary theory.

295 We have used coevolutionary traits among LacI homologs to develop a m

296 ariation in parasitism and may influence the coevolutionary trajectories and population dynamics of b

297 ophilic desert Drosophila reflects divergent coevolutionary trajectories between the sexes.

298 ecting host-range contraction and asymmetric coevolutionary trajectories.

299 ns of laboratory mouse XP-MLV ERVs and their coevolutionary trajectory with their XPR1 receptor, we s

300 eral potential benefits, such as identifying coevolutionary units within networks and uncovering coev