ArticleNucleic acids research2003
MAK, a computational tool kit for automated MITE analysis.
Article in Nucleic acids research, 2003. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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Who cites it
28 citing papers in PubMed, 74 citations in OpenAlex.
- Identification and characterization of transposable element AhMITE1 in the genomes of cultivated and two wild peanuts.BMC genomics · 2022Article
- Recent amplification of microsatellite-associated miniature inverted-repeat transposable elements in the pineapple genome.BMC plant biology · 2021Article
- Identification and characterization of large-scale genomic rearrangements during wheat evolution.PloS one · 2020Article
- A novel miniature transposon-like element discovered in the coding sequence of a gene that encodes for 5-formyltetrahydrofolate in wheat.BMC plant biology · 2019Article
- Identification of an active miniature inverted-repeat transposable element mJing in rice.The Plant journal : for cell and molecular biology · 2019Article
- Genome-wide analysis of a recently active retrotransposon, Au SINE, in wheat: content, distribution within subgenomes and chromosomes, and gene associations.Plant cell reports · 2018Article
- Article
- Transposable elements generate population-specific insertional patterns and allelic variation in genes of wild emmer wheat (Triticum turgidum ssp. dicoccoides).BMC plant biology · 2017Article
- MUSTv2: An Improved De Novo Detection Program for Recently Active Miniature Inverted Repeat Transposable Elements (MITEs).Journal of integrative bioinformatics · 2017Article
- Genome-wide analysis of transposable elements in the coffee berry borer Hypothenemus hampei (Coleoptera: Curculionidae): description of novel families.Molecular genetics and genomics : MGG · 2017Article
- iMITEdb: the genome-wide landscape of miniature inverted-repeat transposable elements in insects.Database : the journal of biological databases and curation · 2016Article
- Evolutionary genomics of miniature inverted-repeat transposable elements (MITEs) in Brassica.Molecular genetics and genomics : MGG · 2015Article
- Genome-wide comparative analysis of 20 miniature inverted-repeat transposable element families in Brassica rapa and B. oleracea.PloS one · 2014Article
- Tc1-like transposable elements in plant genomes.Mobile DNA · 2014Article
- Genome-wide analysis of short interspersed nuclear elements SINES revealed high sequence conservation, gene association and retrotranspositional activity in wheat.The Plant journal : for cell and molecular biology · 2013Article
- MITE Digger, an efficient and accurate algorithm for genome wide discovery of miniature inverted repeat transposable elements.BMC bioinformatics · 2013Article
- Birth of three stowaway-like MITE families via microhomology-mediated miniaturization of a Tc1/Mariner element in the yellow fever mosquito.Genome biology and evolution · 2013Article
- Genome-wide analysis of Stowaway-like MITEs in wheat reveals high sequence conservation, gene association, and genomic diversification.Plant physiology · 2013Article
- ATon, abundant novel nonautonomous mobile genetic elements in yellow fever mosquito (Aedes aegypti).BMC genomics · 2012Article
- Miniature inverted-repeat transposable elements (MITEs) have been accumulated through amplification bursts and play important roles in gene expression and species diversity in Oryza sativa.Molecular biology and evolution · 2012Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Miniature inverted repeat transposable elements (MITEs) are ubiquitous and numerous in higher eukaryotic genomes. Analysis of MITE families is laborious and time consuming, especially when multiple MITE families are involved in the study. Based on the structural characteristics of MITEs and genetic principles for transposable elements (TEs), we have developed a computational tool kit named MITE analysis kit (MAK) to automate the processes (http://perl.idmb.tamu.edu/mak.htm). In addition to its ability to routinely retrieve family member sequences and to report the positions of these elements relative to the closest neighboring genes, MAK is a powerful tool for revealing anchor elements that link MITE families to known transposable element families. Implementation of the MAK is described, as are genetic principles and algorithms used in its derivation. Test runs of the programs for several MITE families yielded anchor sequences that retain TIRs and coding regions reminiscent of transposases. These anchor sequences are consistent with previously reported putative autonomous elements for these MITE families. Furthermore, analysis of two MITE families with no known links to any transposon family revealed two novel transposon families, namely Math and Kid, belonging to the IS5/Harbinger/PIF superfamily.
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