Transcriptome analysis and annotation: SNPs identified from single copy annotated unigenes of three polyploid blueberry crops

Basit Öğe Kaydı
dc.authorid0000-0002-6767-4355en_US
dc.authorid0000-0002-7470-0080en_US
dc.authorid0000-0001-5579-5179en_US
dc.authorid0000-0002-0595-5661en_US
dc.contributor.authorWang, Yunsheng
dc.contributor.authorShahid, Muhammad Qasim
dc.contributor.authorGhouri, Fozia
dc.contributor.authorErcişli, Sezai
dc.contributor.authorBaloch, Faheem Shehzad
dc.contributor.authorNie, Fei
dc.date.accessioned2021-06-23T19:51:47Z
dc.date.available2021-06-23T19:51:47Z
dc.date.issued2019
dc.departmentBAİBÜ, Ziraat Fakültesi, Tarla Bitkileri Bölümüen_US
dc.description.abstractBlueberry is a kind of new rising popular perennial fruit with high healthful quality. It is of utmost importance to develop new blueberry varieties for different climatic zones to satisfy the demand of people in the world. Molecular marker assisted breeding is believed to be an ideal method for the development of new blueberry varieties for its shorter breeding cycle than the conventional breeding. Simple sequence repeats (SSRs) and single nucleotide polymorphisms (SNPs) markers are widely used molecular tools for marker assisted breeding, which could be detected at large scale by the transcriptome sequencing. Here, we sequenced the leaves transcriptome of 19 rabbiteye (Vaccinium ashei Reade), 13 southern highbush (Vaccinium. corymbosum L x native southern Vaccinium Spp) and 22 cultivars of northern highbush blueberry (Vaccinium corymbosum L) by using next generation sequencing technologies. A total of 80.825 Gb clean data with an average of about 12.525 million reads per cultivar were obtained. We assembled 58,968, 55,973 and 53,887 unigenes by using the clean data from rabbiteye, southern highbush and northern highbush blueberry cultivars, respectively. Among these unigenes, 3599, 3495 and 3513 unigenes were detected as candidate resistance genes in three blueberry crops. Moreover, we identified more than 8756, 9020, and 9198 SSR markers from these unigenes, and 7665, 4861, 13,063 SNPs from the annotated single copy unigenes, respectively. The results will be helpful for the molecular genetics and association analysis of blueberry and the basic molecular information of pest and disease resistance of blueberry, and would also offer huge number of molecular tools for the marker assisted breeding to produce blueberry cultivars with different adaptive characteristics.en_US
dc.identifier.doi10.1371/journal.pone.0216299
dc.identifier.issn1932-6203
dc.identifier.issue4en_US
dc.identifier.pmid31034501en_US
dc.identifier.scopus2-s2.0-85065301294en_US
dc.identifier.scopusqualityQ1en_US
dc.identifier.urihttps://doi.org/10.1371/journal.pone.0216299
dc.identifier.urihttps://hdl.handle.net/20.500.12491/10047
dc.identifier.volume14en_US
dc.identifier.wosWOS:000466131200053en_US
dc.identifier.wosqualityQ2en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.indekslendigikaynakPubMeden_US
dc.institutionauthorBaloch, Faheem Shehzad
dc.language.isoenen_US
dc.publisherPublic Library Scienceen_US
dc.relation.ispartofPlos Oneen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/openAccessen_US
dc.subjectSSRen_US
dc.subjectSNP
dc.subjectHaplotype-phased Genom
dc.titleTranscriptome analysis and annotation: SNPs identified from single copy annotated unigenes of three polyploid blueberry cropsen_US
dc.typeArticleen_US

Dosyalar

Orijinal paket
Listeleniyor 1 - 1 / 1
Küçük Resim
İsim:
yunsheng-wang.pdf
Boyut:
1.19 MB
Biçim:
Adobe Portable Document Format
Açıklama:
Tam Metin/Full Text
İndir

Koleksiyon

WoS İndeksli Yayınlar Koleksiyonu
PubMed İndeksli Yayınlar Koleksiyonu
Scopus İndeksli Yayınlar Koleksiyonu
Tarla Bitkileri Bölümü Koleksiyonu