RNA-seq reveals differential expression patterns of genes associated with carotenoid accumulation in loquat

Basit Öğe Kaydı
dc.authorid0000-0002-6767-4355en_US
dc.authorid0000-0002-7470-0080en_US
dc.contributor.authorZheng, Ting-ting
dc.contributor.authorZhang, Zhi-ke
dc.contributor.authorShahid, Muhammad Qasim
dc.contributor.authorWei, Wei-ling
dc.contributor.authorBaloch, Faheem Shehzad
dc.date.accessioned2021-06-23T19:45:39Z
dc.date.available2021-06-23T19:45:39Z
dc.date.issued2017
dc.departmentBAİBÜ, Ziraat Fakültesi, Tarla Bitkileri Bölümüen_US
dc.description.abstractLoquat (Eriobotrya japonica Lindl.) cultivars can be classified as yellow- and white-fleshed based on fruit color. The pulps of yellow-fleshed cultivars appear yellow because of high contents of carotenoids, while the pulps of white-fleshed cultivars appear ivory white due to the lack of carotenoid accumulation. To elucidate the genes associated with the carotenoid accumulation, de novo assembly of the fruit transcriptome in three loquat cultivars having different pulp colors, including 'Golden nugget' (yellow pulp), 'Jiefangzhong' (yellow pulp), and 'Baiyu' (white pulp), at breaker stage, was conducted in this study. By RNA-seq, a total of 11.92 Gb clean data was obtained, and 51,934 unigenes were assembled and annotated. Based on BLAST search, 26,447 unigenes had a hit in at least one of the protein and nucleotide databases used in the present study. Swiss-Port annotation and Clusters of Orthologous Group were assigned for 16,679 and 13,986 unigenes, respectively. Moreover, Gene Ontology enrichment analysis classified 18,842 unigenes into 53 functional groups, which largely detected in biological process category, followed by cellular component category and molecular function category. We detected 3438 differentially expressed genes using Reads Per kb per Million reads method. Of these genes, six were identified as carotenoid accumulation-related genes. Our study revealed a certain relationship between carotenoid accumulation and expression patterns of carotenogenic genes.en_US
dc.identifier.doi10.1007/s11738-017-2463-0
dc.identifier.issn0137-5881
dc.identifier.issn1861-1664
dc.identifier.issue8en_US
dc.identifier.scopus2-s2.0-85024380557en_US
dc.identifier.scopusqualityQ2en_US
dc.identifier.urihttps://doi.org/10.1007/s11738-017-2463-0
dc.identifier.urihttps://hdl.handle.net/20.500.12491/9189
dc.identifier.volume39en_US
dc.identifier.wosWOS:000405471300007en_US
dc.identifier.wosqualityQ2en_US
dc.indekslendigikaynakWeb of Scienceen_US
dc.indekslendigikaynakScopusen_US
dc.institutionauthorBaloch, Faheem Shehzad
dc.language.isoenen_US
dc.publisherSpringer Heidelbergen_US
dc.relation.ispartofActa Physiologiae Plantarumen_US
dc.relation.publicationcategoryMakale - Uluslararası Hakemli Dergi - Kurum Öğretim Elemanıen_US
dc.rightsinfo:eu-repo/semantics/closedAccessen_US
dc.subjectEriobotrya Japonicaen_US
dc.subjectRNA-Sequencingen_US
dc.subjectCarotenoid Accumulationen_US
dc.subjectGene Expressionen_US
dc.titleRNA-seq reveals differential expression patterns of genes associated with carotenoid accumulation in loquaten_US
dc.typeArticleen_US

Dosyalar

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

Koleksiyon

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