Multiple chicken repeat 1 lineages in the genomes of oestroid flies

Thompson, Michelle L.; Gauna, Adrienne E.; Williams, Matthew L.; Ray, David A.

doi:10.1016/j.gene.2009.08.010

Cited by 3 publications

(4 citation statements)

References 54 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Previous analyses already identified elements of the CR1 clade in insects, including Lepidoptera (Biedler and Tu 2003; Kapitonov and Jurka 2003; Novikova et al. 2007; Thompson et al. 2009).…”

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Successful Invasions of Short Internally Deleted Elements (SIDEs) and Its Partner CR1 in Lepidoptera Insects

Wang

Luchetti

Ruggieri

et al. 2019

Genome Biology and Evolution

View full text Add to dashboard Cite

Although DNA transposons often generated internal deleted derivatives such as miniature inverted-repeat transposable elements, short internally deleted elements (SIDEs) derived from nonlong terminal-repeat retrotransposons are rare. Here, we found a novel SIDE, named Persaeus, that originated from the chicken repeat 1 (CR1) retrotransposon Zenon and it has been found widespread in Lepidoptera insects. Our findings suggested that Persaeus and the partner Zenon have experienced a transposition burst in their host genomes and the copy number of Persaeus and Zenon in assayed genomes are significantly correlated. Accordingly, the activity though age analysis indicated that the replication wave of Persaeus coincided with that of Zenon. Phylogenetic analyses suggested that Persaeus may have evolved at least four times independently, and that it has been vertically transferred into its host genomes. Together, our results provide new insights into the evolution dynamics of SIDEs and its partner non-LTRs.

show abstract

Section: Discussionmentioning

confidence: 99%

“…However, the evolutionary history and dynamics of CR1 elements in insects remain largely unknown. So far, CR1 have been found in a few insects, namely some flies (Kapitonov and Jurka 2003; Thompson et al. 2009), the mosquito A. gambiae (Biedler and Tu 2003) and some Lepidoptera (butterflies and moths) species (Novikova et al.…”

Section: Introductionmentioning

confidence: 99%

Successful Invasions of Short Internally Deleted Elements (SIDEs) and Its Partner CR1 in Lepidoptera Insects

Wang

Luchetti

Ruggieri

et al. 2019

Genome Biology and Evolution

View full text Add to dashboard Cite

show abstract

“…An retrotransposon, non-LTR retrotransposon CR1 (Chicken Repeat 1) was identified only in the Ameiva ameiva genome; however, this does not indicate that it was not present in the genome of Cnemidophorus sp.1, because it simply may not have been identified in this study. Retroelement CR1 is a LINE family that is widely distributed in various organisms, including vertebrates (birds, reptiles, and fish) and invertebrates ( Thompson et al 2009 ). CR1 contains a 5'UTR region, two reading frames (ORFs 1 and 2), and a terminal region 3'UTR.…”

Section: Discussionmentioning

confidence: 99%

Differential repetitive DNA composition in the centromeric region of chromosomes of Amazonian lizard species in the family Teiidae

Carvalho

Carmo

Neves

et al. 2016

CCG

View full text Add to dashboard Cite

Differences in heterochromatin distribution patterns and its composition were observed in Amazonian teiid species. Studies have shown repetitive DNA harbors heterochromatic blocks which are located in centromeric and telomeric regions in Ameiva ameiva (Linnaeus, 1758), Kentropyx calcarata (Spix, 1825), Kentropyx pelviceps (Cope, 1868), and Tupinambis teguixin (Linnaeus, 1758). In Cnemidophorus sp.1, repetitive DNA has multiple signals along all chromosomes. The aim of this study was to characterize moderately and highly repetitive DNA sequences by Cot1-DNA from Ameiva ameiva and Cnemidophorus sp.1 genomes through cloning and DNA sequencing, as well as mapping them chromosomally to better understand its organization and genome dynamics. The results of sequencing of DNA libraries obtained by Cot1-DNA showed that different microsatellites, transposons, retrotransposons, and some gene families also comprise the fraction of repetitive DNA in the teiid species. FISH using Cot1-DNA probes isolated from both Ameiva ameiva and Cnemidophorus sp.1 showed these sequences mainly located in heterochromatic centromeric, and telomeric regions in Ameiva ameiva, Kentropyx calcarata, Kentropyx pelviceps, and Tupinambis teguixin chromosomes, indicating they play structural and functional roles in the genome of these species. In Cnemidophorus sp.1, Cot1-DNA probe isolated from Ameiva ameiva had multiple interstitial signals on chromosomes, whereas mapping of Cot1-DNA isolated from the Ameiva ameiva and Cnemidophorus sp.1 highlighted centromeric regions of some chromosomes. Thus, the data obtained showed that many repetitive DNA classes are part of the genome of Ameiva ameiva, Cnemidophorus sp.1, Kentroyx calcarata, Kentropyx pelviceps, and Tupinambis teguixin, and these sequences are shared among the analyzed teiid species, but they were not always allocated at the same chromosome position.

show abstract

“…Mitochondrial sequences, like COI and COII, have been used for species identification but in some cases an overlap between intra- and inter-specific variability renders this method unreliable [20]. Measures to develop a TE-based simple and efficient marker system for the identification of forensically important carrion flies are currently being developed [21]. However, the retrotransposon landscape of carrion fly genomes remains largely unknown.…”

Section: Introductionmentioning

confidence: 99%

Diversity of transposable elements and repeats in a 600 kb region of the fly Calliphora vicina

Negre

Simpson

2013

Mobile DNA

View full text Add to dashboard Cite

BackgroundTransposable elements (TEs) are a very dynamic component of eukaryotic genomes with important implications (e.g., in evolution) and applications (e.g., as transgenic tools). They also represent a major challenge for the assembly and annotation of genomic sequences. However, they are still largely unknown in non-model species.ResultsHere, we have annotated the repeats and transposable elements present in a 600 kb genomic region of the blowfly Calliphora vicina (Diptera: Calliphoridae) which contains most of the achaete-scute gene complex of this species. This is the largest genomic region to be sequenced and analyzed in higher flies outside the Drosophila genus. We find that the repeat content spans at least 24% of the sequence. It includes 318 insertions classified as 3 LTR retrotransposons, 21 LINEs, 14 cut-and-paste DNA transposons, 4 helitrons and 33 unclassified repeats.ConclusionsThis is the most detailed description of TEs and repeats in the Calliphoridae to date. This contribution not only adds to our knowledge about TE evolution but will also help in the annotation of repeats on Dipteran whole genome sequences.

show abstract

Multiple chicken repeat 1 lineages in the genomes of oestroid flies

Cited by 3 publications

References 54 publications

Successful Invasions of Short Internally Deleted Elements (SIDEs) and Its Partner CR1 in Lepidoptera Insects

Successful Invasions of Short Internally Deleted Elements (SIDEs) and Its Partner CR1 in Lepidoptera Insects

Differential repetitive DNA composition in the centromeric region of chromosomes of Amazonian lizard species in the family Teiidae

Diversity of transposable elements and repeats in a 600 kb region of the fly Calliphora vicina

Contact Info

Product

Resources

About