ライフサイエンスコーパス: copia

1 The copia 5' LTR and adjacent untranslated leader region (UL

2 apping to putative regulatory regions of the copia 5' LTR and adjacent untranslated leader region (UL

3 and two retrotransposon classes (Gypsy/CRM, Copia/Ale).

4 can distinguish two types of COPI vesicles, COPIa and COPIb.

5 Phylogenetic analysis revealed seven Copia and five Gypsy evolutionary lineages that were pre

6 repetitive sequences with a large number of Copia and Gypsy elements.

7 s that consist of members from the canonical Copia and Gypsy groups as well as a newly discovered thi

8 Copia and Gypsy LTR-retrotransposon insertions were foun

9 ed that the individual LTR retrotransposons (copia and gypsy-like) were represented by between 90 and

10 By contrast, Ty1-copia and LINE elements were more abundant in drier envi

11 Sequence analysis showed that the Ty1/copia and LINE-like elements were distinct, while a thir

12 s maintained in Drosophila by the balance of Copia and the Arc1 (activity-regulated cytoskeleton-asso

13 erminal repeat (LTR) retrotransposons of the Copia and Ty3 superfamilies also expanded, through trans

14 d another previously uncharacterized factor, copia binding factor-1 (CBF-1).

15 copy imaging shows that the structure of the Copia capsid has a large capacity and pores like retrovi

16 so show that epigenetic silencing of new Ty1/copia copies can affect their impact on major fitness-re

17 The results revealed that the influence of copia copy number and transcription level on copia plasm

18 ith copia copy number, and the difference in copia copy number between parental lines accounted for 4

19 Transcript level correlated with copia copy number, and the difference in copia copy numb

20 ation within and between two families of the copia Drosophila long terminal repeat (LTR) retrotranspo

21 Significant differences in levels of copia [Drosophila long terminal repeat (LTR) retrotransp

22 ion intermediates of the functionally intact COPIA element EVADE revealed multiple central polypurine

23 We demonstrate that the Ty1/Copia element Tal1 (Transposon of Arabidopsis lyrata 1)

24 Strikingly, non-TGCA Copia elements are often located in genic regions and pr

25 we describe a plant-specific lineage of Ty1/copia elements called the Sireviruses.

26 e enrichment of LINE/L1 and long term repeat/Copia elements in lineage 3 apomicts is consistent with

27 LTR is four times shorter than that of other Copia elements, which may be a result of their target sp

28 The majority of noncanonical LTRs are Copia elements, with which the LTR is four times shorter

29 ences are responsible for the variability in copia expression within and between Drosophila species.

30 Heat-responsiveness of COPIA families is correlated with the presence of putati

31 Here, we show that the Ty1 retrotransposon Copia forms virus-like capsids in vivo and transfers bet

32 the rapid isolation of LTR sequences of Ty1-copia group retrotransposons from the genomic DNA of pot

33 to that found in retrotransposons of the Ty-copia group.

34 sociate with stress-response genes (e.g. Ty1-copia) have amplified in arid-adapted palm species.

35 he average dominance of all mutations and of copia insertions in a set of lines that had accumulated

36 ations of 0.17, whereas average dominance of copia insertions was 0.51; the difference between these

37 Copia is enriched at the Drosophila neuromuscular juncti

38 (ULR) of the Drosophila LTR retrotransposon copia is known to be critical to the element's expressio

39 -associated siRNAs (mostly targeting Class I/Copia-Ivana- Copia-SIRE and LINEs elements).

40 he presence of an O-methyl transferase and a Copia like gene respectively in Citrus instead of the am

41 their genome-wide distribution; in contrast, Copia-like and En/Spm-like sequences were overrepresente

42 n contains a novel full-length but nonmobile copia-like element, designated Tcen, that is only associ

43 We show that Ty1/copia-like elements also have undergone copy number incr

44 nt of the deduced peptide sequences with Ty1-copia-like elements from other plants showed considerabl

45 Surveys of sequence heterogeneity of Ty1/copia-like elements in the genomes of the three hybrid a

46 Ty1-copia-like elements showed different and non-random hybr

47 Arabidopsis thaliana and Cicer arietinum Ty1-copia-like elements were found in clusters at the parace

48 dreds, perhaps thousands of Sireviruses: Ty1/copia-like elements with an extra ORF.

49 ther superfamily of LTR retrotransposon (Ty1/copia-like elements) have experienced similar derepressi

50 etitive sequences in this region include one copia-like LTR retrotransposon, 13 simple sequence repea

51 Copia-like retrotransposable element sequences have diff

52 on of the reverse transcriptase genes of Ty1-copia-like retrotransposable elements from 12 plant spec

53 icilian blood orange arose by insertion of a Copia-like retrotransposon adjacent to a gene encoding R

54 We find that an insertion of a Ty1/Copia-like retrotransposon in the haplotype 3 leads to a

55 We also identify a copia-like retrotransposon insertion polymorphism in the

56 ated from the insertion of Sal-T1, a 4863-bp Copia-like retrotransposon, in the 5' untranslated regio

57 We have isolated and characterized Tgmr, a copia-like retrotransposon, linked tightly to the Rps1-k

58 equence identity to either Ty3/gypsy- or Ty1/copia-like retrotransposons.

59 Two non-homologous Pseudoviridae (Ty1/copia-like) elements, two Metaviridae (Ty3/gypsy-like) e

60 minished TEs under darkness were enriched in Copia, LINE, and MuDR dispersed across chromosomes.

61 milies, lineages and species, and notably, a Copia lineage has been lost in soybean.

62 ence for a recent horizontal transfer of the copia long terminal repeat retrotransposon between Droso

63 of TE host-silencing pathways, particularly copia long terminal repeat retrotransposon in Drosophila

64 articular, we showed that insertion of a Ty1-copia LTR retrotransposon occurred specifically in C. ar

65 bout 18% of the lotus genome is comprised of Copia LTR retrotransposons, and over 25% of them are ass

66 Our analysis indicates that the copia LTR-ULR has been subject to negative purifying sel

67 ave quantified levels of naturally occurring copia LTR-ULR nucleotide variation and subjected the dat

68 The ability of the copia LTR-ULR size variants to drive expression of a bac

69 We mapped a QTL affecting copia plasmid concentration within the 33A-43E cytologic

70 copia copy number and transcription level on copia plasmid concentrations are weak and that genomic f

71 out of the two large effect deficiencies on copia plasmid concentrations corresponded to the vasa ge

72 emi-quantitative analysis to assay levels of copia plasmids (believed to be an intermediate of transp

73 H3K9me2 levels at COPIA-R7 affect the choice between two alternative RPP7

74 We show that COPIA-R7, a TE inserted into the Arabidopsis thaliana di

75 fully dependent on high levels of H3K9me2 at COPIA-R7.

76 e responsible for generating and maintaining copia regulatory sequence variation, we have quantified

77 zation (FISH) analysis revealed that the Ty1/copia-related DNA sequences are not specific to the cent

78 selected markers were annotated as Gypsy and Copia retrotransposable elements.

79 mutations, might explain the variability in copia retrotransposon activity between lines.

80 have studied the genetics of differences in copia retrotransposon activity by quantitative trait loc

81 i fail to form, and transcript levels of the copia retrotransposon are elevated more than 50-fold; th

82 a tandemly direct duplicated PvIND and a Ty1-copia retrotransposon inserted between the two repeats.

83 H2A.Z in the preferential integration of Ty1/copia retrotransposons within environmentally responsive

84 that the envelope-like genes in the putative Copia retrovirus-like family are probably derived from t

85 iRNAs (mostly targeting Class I/Copia-Ivana- Copia-SIRE and LINEs elements).

86 Saccharomyces cerevisiae belongs to the Ty1/Copia superfamily, which is present in every eukaryotic

87 w plant retrotransposon belonging to the Ty1-Copia superfamily.

88 , we identify large effect genes involved in copia suppression by using a semi-quantitative analysis

89 We hypothesize that copia suppression occurs by the joint action of several

90 tal lines exhibiting a 10-fold difference in copia transcript level and a 100-fold difference in tran

91 The genes controlling copia transcript level are thus not necessarily those in

92 lines were scored for 126 molecular markers, copia transcript level, and rate of copia transposition.

93 etween parental lines accounted for 45.1% of copia transcript-level difference.

94 r PARG or the silencing protein SIR2 weakens copia transcriptional repression.

95 copia transposition rate was controlled by interacting Q

96 ot necessarily those involved in controlling copia transposition rate.

97 markers, copia transcript level, and rate of copia transposition.

98 ines constructed from a line exhibiting high copia transpositions and a line exhibiting no transposit

99 tural variation, including an insertion of a Copia transposon into a Toll/interleukin receptor (TIR-N

100 relates with transcription and is reduced in COPIA transposons that reactivate expression in kyp suvh

101 The assignment of SIRE-1 to the copia/Ty1 family was confirmed by comparison of the conc

102 a retrovirus-like genome closely related to copia/Ty1 retrotransposons.

103 d, relatively homogeneous copies of a large, copia/Ty1-like retroelement designated SIRE-1.

104 g multiple copies of the integrase gene of a copia-type transposable element and the helicase gene of

105 We show that the full length copia ULR in either orientation but not the gap ULR can

106 Two copia ULR size variants are prevalent in natural populat

107 ctor-2 (BBF-2), is also shown to bind to the copia ULR.

108 We conclude that COPIa vesicle-mediated recycling to the ER occurs only f

109 COPIa vesicles bud exclusively from cis cisternae and oc

110 yadenylation revealed that LTR/Gypsy and LTR/Copia were two major transposable elements within the in