The Beginning of the End: A Chromosomal Assembly of the New World Malaria Mosquito Ends with a Novel Telomere

dc.contributor.authorCompton, Austinen
dc.contributor.authorLiang, Jiangtaoen
dc.contributor.authorChen, Chujiaen
dc.contributor.authorLukyanchikova, Varvaraen
dc.contributor.authorQi, Yuminen
dc.contributor.authorPotters, Mark B.en
dc.contributor.authorSettlage, Roberten
dc.contributor.authorMiller, Dustinen
dc.contributor.authorDeschamps, Stephaneen
dc.contributor.authorMao, Chunhongen
dc.contributor.authorLlaca, Victoren
dc.contributor.authorSharakhov, Igor V.en
dc.contributor.authorTu, Zhijian Jakeen
dc.contributor.departmentBiochemistryen
dc.contributor.departmentFralin Life Sciences Instituteen
dc.contributor.departmentEntomologyen
dc.contributor.departmentAdvanced Research Computingen
dc.date.accessioned2021-01-21T05:13:49Zen
dc.date.available2021-01-21T05:13:49Zen
dc.date.issued2020-10-01en
dc.date.updated2021-01-21T05:13:45Zen
dc.description.abstractChromosome level assemblies are accumulating in various taxonomic groups including mosquitoes. However, even in the few reference-quality mosquito assemblies, a significant portion of the heterochromatic regions including telomeres remain unresolved. Here we produce a de novo assembly of the New World malaria mosquito, Anopheles albimanus by integrating Oxford Nanopore sequencing, Illumina, Hi-C and optical mapping. This 172.6 Mbps female assembly, which we call AalbS3, is obtained by scaffolding polished large contigs (contig N50 = 13.7 Mbps) into three chromosomes. All chromosome arms end with telomeric repeats, which is the first in mosquito assemblies and represents a significant step toward the completion of a genome assembly. These telomeres consist of tandem repeats of a novel 30-32 bp Telomeric Repeat Unit (TRU) and are confirmed by analyzing the termini of long reads and through both chromosomal in situ hybridization and a Bal31 sensitivity assay. The AalbS3 assembly included previously uncharacterized centromeric and rDNA clusters and more than doubled the content of transposable elements and other repetitive sequences. This telomere-to-telomere assembly, although still containing gaps, represents a significant step toward resolving biologically important but previously hidden genomic components. The comparison of different scaffolding methods will also inform future efforts to obtain reference-quality genomes for other mosquito species.en
dc.description.versionPublished (Publication status)en
dc.format.extentPages 3811-3819en
dc.format.extent9 page(s)en
dc.format.mimetypeapplication/pdfen
dc.identifier.doihttps://doi.org/10.1534/g3.120.401654en
dc.identifier.eissn2160-1836en
dc.identifier.issn2160-1836en
dc.identifier.issue10en
dc.identifier.orcidSharakhov, Igor [0000-0003-0752-3747]en
dc.identifier.orcidLiang, Jiangtao [0000-0002-8468-7457]en
dc.identifier.orcidTu, Zhijian [0000-0003-4227-3819]en
dc.identifier.otherg3.120.401654 (PII)en
dc.identifier.pmid32883756 (pubmed)en
dc.identifier.urihttp://hdl.handle.net/10919/101986en
dc.identifier.volume10en
dc.language.isoenen
dc.publisherGenetics Society of Americaen
dc.rightsCreative Commons Attribution 4.0 Internationalen
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en
dc.subjectLife Sciences & Biomedicineen
dc.subjectGenetics & Heredityen
dc.subjectGenome assemblyen
dc.subjectAnopheles albimanusen
dc.subjectOxford Nanoporeen
dc.subjectHi-Cen
dc.subjectBionanoen
dc.subjectANOPHELES-ALBIMANUSen
dc.subjectDROSOPHILA-MELANOGASTERen
dc.subjectELONGATIONen
dc.subjectSEQUENCESen
dc.subjectREPEATen
dc.subjectLENGTHen
dc.subjectDNAen
dc.subject0604 Geneticsen
dc.titleThe Beginning of the End: A Chromosomal Assembly of the New World Malaria Mosquito Ends with a Novel Telomereen
dc.title.serialG3-Genes Genomes Geneticsen
dc.typeArticle - Refereeden
dc.type.dcmitypeTexten
dc.type.otherArticleen
dc.type.otherJournalen
pubs.organisational-group/Virginia Tech/Agriculture & Life Sciencesen
pubs.organisational-group/Virginia Tech/Faculty of Health Sciencesen
pubs.organisational-group/Virginia Tech/All T&R Facultyen
pubs.organisational-group/Virginia Tech/Agriculture & Life Sciences/Entomologyen
pubs.organisational-group/Virginia Tech/Agriculture & Life Sciences/CALS T&R Facultyen
pubs.organisational-group/Virginia Tech/University Research Institutes/Fralin Life Sciences/Durelle Scotten
pubs.organisational-group/Virginia Techen
pubs.organisational-group/Virginia Tech/University Research Institutes/Fralin Life Sciencesen
pubs.organisational-group/Virginia Tech/University Research Institutesen
pubs.organisational-group/Virginia Tech/Agriculture & Life Sciences/Biochemistryen
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