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De novo assembly and characterization of the first draft genome of quince (Cydonia oblonga Mill.)

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dc.contributor.author Soyturk, Aysenur
dc.contributor.author Sen, Fatima
dc.contributor.author Uncu, Ali Tevfik
dc.contributor.author Celik, Ibrahim
dc.contributor.author Uncu, Ayse Ozgur
dc.date.accessioned 2023-01-09T21:10:22Z
dc.date.available 2023-01-09T21:10:22Z
dc.date.issued 2021
dc.identifier.issn 2045-2322
dc.identifier.uri https://doi.org/10.1038/s41598-021-83113-3
dc.identifier.uri http://acikerisim.pau.edu.tr:8080/xmlui/handle/11499/46274
dc.description.abstract Quince (Cydonia oblonga Mill.) is the sole member of the genus Cydonia in the Rosacea family and closely related to the major pome fruits, apple (Malus domestica Borkh.) and pear (Pyrus communis L.). In the present work, whole genome shotgun paired-end sequencing was employed in order to assemble the first draft genome of quince. A genome assembly that spans 488.4 Mb of sequence corresponding to 71.2% of the estimated genome size (686 Mb) was produced in the study. Gene predictions via ab initio and homology-based sequence annotation strategies resulted in the identification of 25,428 and 30,684 unique putative protein coding genes, respectively. 97.4 and 95.6% of putative homologs of Arabidopsis and rice transcription factors were identified in the ab initio predicted genic sequences. Different machine learning algorithms were tested for classifying pre-miRNA (precursor microRNA) coding sequences, identifying Support Vector Machine (SVM) as the best performing classifier. SVM classification predicted 600 putative pre-miRNA coding loci. Repetitive DNA content of the assembly was also characterized. The first draft assembly of the quince genome produced in this work would constitute a foundation for functional genomic research in quince toward dissecting the genetic basis of important traits and performing genomics-assisted breeding. en_US
dc.language.iso en en_US
dc.publisher Nature Portfolio en_US
dc.relation.ispartof Scientific Reports en_US
dc.rights info:eu-repo/semantics/openAccess en_US
dc.title De novo assembly and characterization of the first draft genome of quince (Cydonia oblonga Mill.) en_US
dc.type Article en_US
dc.identifier.volume 11 en_US
dc.identifier.issue 1 en_US
dc.authorid Sen, Fatima/0000-0002-8586-5286
dc.authorid çelik, ibrahim/0000-0002-6205-0930
dc.authorid Soyturk Patat, Aysenur/0000-0002-1086-3913
dc.identifier.doi 10.1038/s41598-021-83113-3
dc.relation.publicationcategory Makale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanı en_US
dc.authorscopusid 57222114691
dc.authorscopusid 57215212838
dc.authorscopusid 55207331900
dc.authorscopusid 54927319000
dc.authorscopusid 55682189400
dc.authorwosid Sen, Fatima/AAW-3092-2020
dc.authorwosid çelik, ibrahim/ABG-4617-2020
dc.department-temp [Soyturk, Aysenur; Uncu, Ali Tevfik] Necmettin Erbakan Univ, Dept Mol Biol & Genet, TR-42090 Meram, Konya, Turkey; [Sen, Fatima; Uncu, Ayse Ozgur] Necmettin Erbakan Univ, Dept Biotechnol, TR-42090 Meram, Konya, Turkey; [Celik, Ibrahim] Pamukkale Univ, Dept Agr & Livestock Prod, TR-20700 Denizli, Turkey en_US
dc.identifier.pmid 33589687 en_US
dc.identifier.scopus 2-s2.0-85101431173 en_US
dc.identifier.wos WOS:000623879500021 en_US

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