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Alliance"],"published-print":{"date-parts":[[2023,12]]},"abstract":"<jats:p>\n                    <jats:italic>Ixodes scapularis<\/jats:italic>\n                    , the black-legged tick, is the principal vector of the Lyme disease spirochete,\n                    <jats:italic>Borrelia burgdorferi<\/jats:italic>\n                    , and is responsible for most of the \u223c470,000 estimated Lyme disease cases annually in the USA.\n                    <jats:italic>Ixodes scapularis<\/jats:italic>\n                    can transmit six additional pathogens of human health significance. Because of its medical importance,\n                    <jats:italic>I. scapularis<\/jats:italic>\n                    was the first tick genome to be sequenced and annotated. However, the first assembly,\n                    <jats:italic>I. scapularis<\/jats:italic>\n                    Wikel (IscaW), was highly fragmented because of the technical challenges posed by the long, repetitive genome sequences characteristic of arthropod genomes and the lack of long-read sequencing techniques. Although\n                    <jats:italic>I. scapularis<\/jats:italic>\n                    has emerged as a model for tick research because of the availability of new tools such as embryo injection and CRISPR-Cas9-mediated gene editing yet the lack of chromosome-scale scaffolds has slowed progress in tick biology and the development of tools for their control. Here we combine diverse technologies to produce the\n                    <jats:italic>I. scapularis<\/jats:italic>\n                    Gulia-Nuss (IscGN) genome assembly and gene set. We used DNA from eggs and male and female adult ticks and took advantage of Hi-C, PacBio HiFi sequencing, and Illumina short-read sequencing technologies to produce a chromosome-level assembly. In this work, we present the predicted pseudochromosomes consisting of 13 autosomes and the sex pseudochromosomes: X and Y, and a markedly improved genome annotation compared with the existing assemblies and annotations.\n                  <\/jats:p>","DOI":"10.26508\/lsa.202302109","type":"journal-article","created":{"date-parts":[[2023,10,9]],"date-time":"2023-10-09T12:40:37Z","timestamp":1696855237000},"page":"e202302109","update-policy":"https:\/\/doi.org\/10.26508\/lsa.crossmarkpolicy","source":"Crossref","is-referenced-by-count":33,"title":["The highly improved genome of\n                    <i>Ixodes scapularis<\/i>\n                    with X and Y pseudochromosomes"],"prefix":"10.26508","volume":"6","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-3764-2053","authenticated-orcid":true,"given":"Andrew B","family":"Nuss","sequence":"first","affiliation":[{"id":[{"id":"https:\/\/ror.org\/01keh0577","id-type":"ROR","asserted-by":"publisher"}],"name":"Department of Biochemistry 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