Vertebrate helentrons and other novel Helitrons

Poulter, Russell T. M.; Goodwin, Timothy J. D.; Butler, Margaret I.

doi:10.1016/s0378-1119(03)00679-6

Cited by 71 publications

(90 citation statements)

References 30 publications

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“…RepHels are structurally diverse, yet carry out conserved endonuclease, helicase, DNA transfer, and ligation reactions during rolling circle replication (Kapitonov and Jurka 2007b). In addition to endonuclease and helicase domains, the RepHel proteins also can encode a zinc finger domain that may function during DNA binding, and animal RepHel proteins also have been shown to contain C-terminal endonuclease and cysteine proteinase domains (Poulter 2003;Zhou 2006). The functional roles of these latter two domains are yet to be elucidated, but is hypothesized that endonuclease activity may be involved in host genome integration (Kapitonov and Jurka 2001).…”

Section: Bombyx Mori Autonomous Mine-1 Helitronsmentioning

confidence: 99%

A Helitron-Like Transposon Superfamily from Lepidoptera Disrupts (GAAA)n Microsatellites and is Responsible for Flanking Sequence Similarity within a Microsatellite Family

et al. 2010

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Transposable elements (TEs) are mobile DNA regions that alter host genome structure and gene expression. A novel 588 bp non-autonomous high copy number TE in the Ostrinia nubilalis genome has features in common with miniature inverted-repeat transposable elements (MITEs): high A + T content (62.3%), lack of internal protein coding sequence, and secondary structure consisting of subterminal inverted repeats (SIRs). The O. nubilalis TE has inserted at (GAAA)n microsatellite loci, and was named the microsatellite-associated interspersed nuclear element ( MINE-1). Non-autonomous MINE-1 superfamily members also were identified downstream of (GAAA)n microsatellites within Bombyx mori and Pectinophora gossypiella genomes. Of 316 (GAAA)n microsatellites from the B. mori whole genome sequence, 201 (63.6%) have associated autonomous or non-autonomous MINE-1 elements. Autonomous B. mori MINE-1s a encode a helicase and endonuclease domain RepHel-like protein (BMHELp1) indicating their classification as Helitron-like transposons and were renamed Helitron1_BM. Transposition of MINE-1 members in Lepidoptera has resulted in the disruption of (GAAA)n microsatellite loci, has impacted the application of microsatellite-based genetic markers, and suggests genome sequence that flanks TT/AA dinucleotides may be required for target site recognition by RepHel endonuclease domains. Abstract Transposable elements (TEs) are mobile DNA regions that alter host genome structure and gene expression. A novel 588 bp non-autonomous high copy number TE in the Ostrinia nubilalis genome has features in common with miniature inverted-repeat transposable elements (MITEs): high A ? T content (62.3%), lack of internal protein coding sequence, and secondary structure consisting of subterminal inverted repeats (SIRs). The O. nubilalis TE has inserted at (GAAA) n microsatellite loci, and was named the microsatellite-associated interspersed nuclear element (MINE-1). Non-autonomous MINE-1 superfamily members also were identified downstream of (GAAA) n microsatellites within Bombyx mori and Pectinophora gossypiella genomes. Of 316 (GAAA) n microsatellites from the B. mori whole genome sequence, 201 (63.6%) have associated autonomous or non-autonomous MINE-1 elements. Autonomous B. mori MINE-1s a encode a helicase and endonuclease domain RepHel-like protein (BMHELp1) indicating their classification as Helitron-like transposons and were renamed Helitron1_BM. Transposition of MINE-1 members in Lepidoptera has resulted in the disruption of (GAAA) n microsatellite loci, has impacted the application of microsatellite-based genetic markers, and suggests genome sequence that flanks TT/AA dinucleotides may be required for target site recognition by RepHel endonuclease domains.

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Section: Bombyx Mori Autonomous Mine-1 Helitronsmentioning

confidence: 99%

A Helitron-Like Transposon Superfamily from Lepidoptera Disrupts (GAAA)n Microsatellites and is Responsible for Flanking Sequence Similarity within a Microsatellite Family

et al. 2010

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“…Because Helitron sequences are less diverse than retrotransposons, a larger region of protein sequence alignment was necessary. First, a composite M. violaceum sequence was made by aligning the fragments with a representative Helitron transposable element from Oryza sativa (protein sequence accession number BAA92200 translated from DNA sequence accession AP001278 as in Poulter et al, 2003). The M. violaceum fragments provided ca.…”

Section: Sequence Data Analysismentioning

confidence: 99%

“…90% coverage of a 900 residue region of the Helitron protein from Oryza. Using ClustalW, a protein sequence from each host species in the Helitron (helicase) phylogeny of Poulter et al (2003) was then aligned with the composite M. violaceum sequence, and a neighbor-joining analysis was performed using Mega 2.1. Because this analysis of Helitron sequences was unconventional in combining multiple fragments from the M. violaceum genome, two control tests were conducted to increase confidence in the results.…”

Section: Sequence Data Analysismentioning

confidence: 99%

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Repetitive DNA in the automictic fungus Microbotryum violaceum

Hood

2005

Genetica

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The small genomes of fungi are expected to have little repetitive content other than rDNA genes. Moreover, among asexual or highly selfing lineages, the diversity of repetitive elements is also expected to be very low. However, in the automictic fungus Microbotryum violaceum, a very large proportion of random DNA fragments from the autosomes and the fungal sex chromosomes are repetitive in nature, either as retrotransposon or helicase sequences. Among the retrotransposon sequences, examples were found from each major kind of elements, including copia, gypsy, and non-LTR sequences. The most numerous were copialike elements, which are believed to be rare in fungi, particularly among basidiomycetes. The many helicase sequences appear to belong to the recently discovered Helitron type of transposable elements. Also, sequences that could not be identified as a known type of gene were also very repetitive within the database of random fragments from M. violaceum. The differentiated pair of fungal sex chromosomes and suppression of recombination may be the major forces determining the highly repetitive content in the small genome of M. violaceum.

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“…These include other plants, invertebrates, fungi and fish (Choi et al 2007;Kapitinov and Jurka 2001;Lal et al 2003;Poulter, Goodwin, Butler 2003). Massive abundance of Helitrons has been recently reported in a mammalian genome, the brown bat Myotis lucifugus, where they constitute ~3% of the genome (Pritham and Feschotte 2007 Kapitinov and Jurka 2007).…”

Section: Introduction and Overview Of Helitronsmentioning

confidence: 99%

Helitrons: Their Impact on Maize Genome Evolution and Diversity

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Abstract.Gene movement by the newly-described Helitron family of transposable elements apparently has significantly impacted the evolution of this genome and has contributed to the lack of intra-specific gene collinearity between different maize inbred lines. The abundance of these elements and the extent of diversity among them remain largely undetermined. Several hypotheses have been proposed to explain their transposition and mechanism by which these elements prolifically capture and mobilize gene sequences, but each lacks supporting experimental evidence. A more complete understanding of this process requires molecular and genetic evidence of Helitron activity in modern maize genome. Establishment of in vivo and in vitro systems to assay transposition activity would also aid our understanding of this new class of transposable elements.

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Vertebrate helentrons and other novel Helitrons

Cited by 71 publications

References 30 publications

A Helitron-Like Transposon Superfamily from Lepidoptera Disrupts (GAAA)n Microsatellites and is Responsible for Flanking Sequence Similarity within a Microsatellite Family

A Helitron-Like Transposon Superfamily from Lepidoptera Disrupts (GAAA)n Microsatellites and is Responsible for Flanking Sequence Similarity within a Microsatellite Family

Repetitive DNA in the automictic fungus Microbotryum violaceum

Helitrons: Their Impact on Maize Genome Evolution and Diversity

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