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1 D. pseudoobscura and D. affinis were used for the betwee
2 for the five loci show that gene flow among D. pseudoobscura populations is sufficient to homogenize
5 genes (>50 kbp) in D. melanogaster (42%) and D. pseudoobscura (26%) constitute their own TADs, implyi
6 h two other loci, in both D. p. bogotana and D. pseudoobscura, strongly suggest this reduction is due
8 d and not shared between D. melanogaster and D. pseudoobscura show that there are separate classes un
9 am protein is present in D. melanogaster and D. pseudoobscura testes, cognate proteins for the gene1/
11 osomal rearrangements between D. miranda and D. pseudoobscura are far higher than those found before
12 atural populations of Drosophila miranda and D. pseudoobscura, together with their sequence divergenc
13 bscura and close relatives D. persimilis and D. pseudoobscura bogotana has been studied using compara
19 All species of the Drosophila subgenus and D. pseudoobscura of the Sophophora subgenus completely l
21 the genetic basis of the difference between D. pseudoobscura and D. persimilis in two courtship song
22 e fraction of amino acid differences between D. pseudoobscura and D. affinis appear to have been fixe
23 lasmic incompatibility system exists between D. pseudoobscura strains BogER and AH162; and, that BogE
24 gned coding and non-coding sequences between D. pseudoobscura and D. miranda, and investigated their
26 lent sites is, on average, very weak in both D. pseudoobscura and D. simulans (magnitude of NS approx
28 sophila melanogaster genes, as well as fewer D. pseudoobscura and D. virilis genes, was examined from
29 and accompanying high-resolution TAD map for D. pseudoobscura Comparison of D. pseudoobscura and D. m
30 mated times since speciation are one mya for D. pseudoobscura and D. persimilis and 2 mya since the f
32 ed the knot wing cis-regulatory element from D. pseudoobscura, which contains a cluster of UBX-bindin
34 ionally, we utilized recombination maps from D. pseudoobscura and D. miranda to explore whether chang
38 ence content of polymorphic Y Chromosomes in D. pseudoobscura We show that Y Chromosomes differ almos
40 expression diminishes across development in D. pseudoobscura, but remains elevated in D. miranda, th
44 e level of polymorphism at the Gpdh locus in D. pseudoobscura is comparable to that found at other lo
45 conferring high or low assortative mating in D. pseudoobscura produce the same effects when inserted
48 act that this ratio is much less than one in D. pseudoobscura is also consistent with the model's pre
50 iation in crossover rate at a local scale in D. pseudoobscura, little is known about the fine-scale s
51 he sense message is transcribed similarly in D. pseudoobscura males and females and in hybrids of D.
52 anda is approximately one-quarter of that in D. pseudoobscura; mean X-linked silent diversity is abou
53 nd the antisense messages are transcribed in D. pseudoobscura, but only the sense message (TRAP100) i
54 of the higher level of sequence variation in D. pseudoobscura can be explained by differences in regi
55 st drastic amplification on the largest Y in D. pseudoobscura independently amplified on a polymorphi
56 the codon usage patterns in D. melanogaster, D. pseudoobscura, and D. virilis compared with the rest
58 th the completed genomes of D. melanogaster, D. pseudoobscura, and Drosophila yakuba to show that the
59 t fixed variation across the X chromosome of D. pseudoobscura because, while significant linkage dise
60 n TAD map for D. pseudoobscura Comparison of D. pseudoobscura and D. melanogaster, which are separate
61 y is also present in the sequenced genome of D. pseudoobscura, and homologs have been found in Aedes
63 upport the hypothesis that the inversions of D. pseudoobscura have emerged as suppressors of recombin
65 ter, by using the public genome sequences of D. pseudoobscura and D. melanogaster and approximately 5
67 Sanger sequencing on gaps from the original D. pseudoobscura draft assembly and shown to be dependen
68 interspecific comparisons with D. simulans, D. pseudoobscura and D.virilis to explore the molecular
71 Compared to its well-studied sibling species D. pseudoobscura, D. miranda has much less nucleotide se
72 r by subjecting another polyandrous species, D. pseudoobscura, to 150 generations of experimental mon
73 D. miranda relative to its sibling species, D. pseudoobscura, suggest that it has a much smaller eff
75 proof-of-principle experiments showing that D. pseudoobscura fosmids can successfully rescue RNAi-in
76 loci surveyed are negative, suggesting that D. pseudoobscura may have experienced a rapid population
78 pose possible ancestral arrangements for the D. pseudoobscura C chromosome, which are different from
79 Additionally, many DNA duplications in the D. pseudoobscura genome are flanked by a repetitive sequ
82 onsible for recently duplicated genes in the D. pseudoobscura genome, and I observed both retroposed
83 transcriptional regulation of TRAP100 in the D. pseudoobscura lineage and that its underexpression in
84 ter for genes on this chromosomal arm in the D. pseudoobscura lineage, relative to the D. melanogaste
86 nucleotide substitutions for Acp26Aa in the D. pseudoobscura subgroup but not in the D. melanogaster
87 of indel substitution within Acp26Aa in the D. pseudoobscura subgroup were up to several times those
90 ecombination across approximately 43% of the D. pseudoobscura physical genome in two separate recombi
91 ribution of both protein-coding genes on the D. pseudoobscura neo-X chromosome and microRNA genes of
93 across each of these genomes relative to the D. pseudoobscura reference genome, and use RT-PCR to con
95 undetected losses in the lineage leading to D. pseudoobscura We find that while the original (synten
96 s strongly associated with mating success to D. pseudoobscura females, while intrapulse frequency is
97 predicted direction among 99 alleles of two D. pseudoobscura genes and five alleles of eight D. simu
98 nes within conserved regions of synteny with D. pseudoobscura had highly correlated expression; these
99 is highly variable and shares variation with D. pseudoobscura at other loci, the low level of variati
100 A large amount of variation was found within D. pseudoobscura and D. persimilis, consistent with hist
101 A survey of nucleotide polymorphism within D. pseudoobscura revealed no amino acid variation in thi