@RepeatExplorer

A computational pipeline designed to characterize repetitive DNA in next-generation sequencing data from plant and animal genomes. Developed by @MacasLab.

repeatexplorer.org
Joined December 2019
  • Tweets45
  • Following20
  • Followers243
3Media
RepeatExplorer retweeted
Macas lab@MacasLab20 Feb 2025
Registration open to the 12th @RepeatExplorer Workshop (May 27-29), this year focusing on repeat annotation in genome assemblies ! repeatexplorer.org/?page_id=…
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RepeatExplorer retweeted
Macas lab@MacasLab29 Aug 2024
Excited to share our tools for LTR-retrotransposon annotation in plant genomes ! Supported by @ELIXIRCZ. doi.org/10.1093/nargab/lqae1…

DANTE and DANTE_LTR: lineage-centric annotation pipelines for long terminal repeat retrotransposons...

Abstract. Long terminal repeat (LTR) retrotransposons constitute a predominant class of repetitive DNA elements in most plant genomes. With the increasing

academic.oup.com
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RepeatExplorer retweeted
Macas lab@MacasLab19 Apr 2024
DANTE and DANTE_LTR: computational pipelines implementing lineage-centered annotation of LTR-retrotransposons in plant genomes. doi.org/10.1101/2024.04.17.5…
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Happy to share this nice collaborative work led by the very talented grad student @YMata_Sucre Repeat-based phylogenomics shed light on unclear relationships in the monocentric genus Juncus L. (Juncaceae) authors.elsevier.com/c/1hpxi…
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RepeatExplorer retweeted
Pedro Lorite@PedroPlorite24 Aug 2023
The spread of satellite DNAs in euchromatin and insights into the multiple sex chromosome evolution in Hemiptera revealed by repeatome analysis of the bug Oxycarenus hyalinipennis - Cabral‐de‐Mello - Insect Molecular Biology - Wiley Online Library resjournals.onlinelibrary.wi…

The spread of satellite DNAs in euchromatin and insights into the multiple sex chromosome evolution...

The genomic analysis revealed a male-biased abundance of satellite DNAs (satDNAs) in the bug Oxycarenus hyalinipennis. The complementary chromosomal analysis by fluorescence in situ hybridization...

resjournals.onlinelibrary.wiley.com
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RepeatExplorer retweeted
Kay Lucek@KayLucek14 Aug 2023
Replying to @CamilleCornet17
@CamilleCornet17 1st thesis paper is out @molecology: #Holocentric repeat landscapes: From micro-evolutionary patterns to macro-evolutionary associations with karyotype evolution 👉 onlinelibrary.wiley.com/doi/…

Holocentric repeat landscapes: From micro‐evolutionary patterns to macro‐evolutionary associations...

Repetitive elements can cause large-scale chromosomal rearrangements, for example through ectopic recombination, potentially promoting reproductive isolation and speciation. Species with holocentric...

onlinelibrary.wiley.com
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RepeatExplorer retweeted
Macas lab@MacasLab24 May 2023
Closing a busy day at the @RepeatExplorer workshop !
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So pleased to be funded by the @ELIXIREurope Travel Grant Scheme to present a demo at the @RepeatExplorer workshop with the computing facilities from @INRAE_URGI #PlantBioinfoPF and @ELIXIRCZ.
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RepeatExplorer retweeted
Annals of Botany@annbot14 Apr 2023
🔥ADVANCE ACCESS🔥: Investigating the diversification of holocentromeric satellite DNA Tyba in Rhynchospora (Cyperaceae) doi.org/10.1093/aob/mcad036?…

Investigating the diversification of holocentromeric satellite DNA Tyba in Rhynchospora (Cyperaceae)

AbstractBackground and Aims. Satellite DNAs (satDNAs) are repetitive sequences composed by tandemly arranged, often highly homogenized units called monomer

academic.oup.com
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RepeatExplorer retweeted
Macas lab@MacasLab15 Feb 2023
Register to the @RepeatExplorer workshop which will take place on May 23-25 ! This year also featuring the REPET pipeline presented by @JohannConfais. More info and registration: repeatexplorer.org/?page_id=…
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RepeatExplorer retweeted
Macas lab@MacasLab5 Jan 2023
Happy to share our latest work on the disruption of the standard #kinetochore in #holocentric #Cuscuta plants: doi.org/10.1101/2023.01.04.5…
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Phylogenetic relationships and repeatome analysis in the South African genus Pteronia: frontiersin.org/articles/10.… @IBOTCZ @CEITEC_Brno @sci_muni
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RepeatExplorer demo by Petr Novák! @RepeatExplorer repeatexplorer-elixir.cerit-… #UppTransposon2022
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RepeatExplorer retweeted
Macas lab@MacasLab27 Oct 2022
A giant, multi-domain #centromere of garden pea assembled ! Check out our preprint doi.org/10.1101/2022.10.25.5…
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RepeatExplorer retweeted
Macas lab@MacasLab4 Aug 2022
Great collaboration with the excellent team led by @marques_et_al ! Supported by @ELIXIRCZ and #GACR.
André Marques@marques_et_al4 Aug 2022
Replying to @marques_et_al
There are many more exciting findings in our paper! Please read n' share! We conclude that transition to holocentricity has contributed to a reorganization of the genome architecture and allowed chromosomes to evolve under different constrains as for monocentric organisms! [13/]
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RepeatExplorer retweeted
Ovidiu Paun@ViePlantGenom1 Aug 2022
Happy to share our new paper published in @MolBiolEvol: Repeat dynamics across timescales: a perspective from sibling allotetraploid marsh #orchids doi.org/10.1093/molbev/msac1… #polyploidy #transposableElements #mobileDNA @CeciliaMimmi 1st author, @TeriMandakova, @__mcjamie__ & others
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RepeatExplorer retweeted
New Phytologist@NewPhyt15 Jul 2022
The #ecology of palm genomes: repeat-associated genome size expansion is constrained by aridity @RowanSchley @cfbarrett999 @SidonieBellot @RepeatExplorer @BillJBaker @DrSDodsworth @leitch_ar @IliaLeitch ow.ly/QYWI50JVNTJ
Summary of the similarities between repeats in a genome and organisms within an ecological community.

ALT Summary of the similarities between repeats in a genome and organisms within an ecological community.

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Genomes, repeatomes and interphase chromosome organization in the meadowfoam family (Limnanthaceae, Brassicales) @ThePlantJournal onlinelibrary.wiley.com/doi/… @CEITEC_Brno @sci_muni @muni_cz
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Happy to share my work on White Lupin cytogenomics! It was a pleasure to help characterising the genome of this important crop! @PeretLab @hufnagelbarbara The Highly Repeat-Diverse (Peri) Centromeres of White Lupin (Lupinus albus L.) frontiersin.org/article/10.3…
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⭕️🧬🔍Excited to announce that our ECCsplorer software to analyze #eccdna has now found a home at @BMCBioinfo. 💾check out the tool: github.com/crimBubble/ECCspl… 📚check out the paper: doi.org/10.1186/s12859-021-0… ...and follow @crim_bubble who has spearheaded this project!
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