Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Deep sequencing and analysis of small RNAs from the flowers of four Rosa

ABSTRACT: High-throughput sequencing was employed to identify conserved and variable microRNAs among 4 Rosa floral sRNA profiles generated from Rosa (Vital, Marrussia, Simpas, Haedang)

ORGANISM(S): Rosa hybrid cultivar

SUBMITTER: Jungeun Kim

PROVIDER: E-GEOD-39882 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Small RNA and transcriptome deep sequencing proffers insight into floral gene regulation in Rosa cultivars.

Kim Jungeun J Park June Hyun JH Lim Chan Ju CJ Lim Jae Yun JY Ryu Jee-Youn JY Lee Bong-Woo BW Choi Jae-Pil JP Kim Woong Bom WB Lee Ha Yeon HY Choi Yourim Y Kim Donghyun D Hur Cheol-Goo CG Kim Sukweon S Noh Yoo-Sun YS Shin Chanseok C Kwon Suk-Yoon SY

BMC genomics 20121121

<h4>Background</h4>Roses (Rosa sp.), which belong to the family Rosaceae, are the most economically important ornamental plants--making up 30% of the floriculture market. However, given high demand for roses, rose breeding programs are limited in molecular resources which can greatly enhance and speed breeding efforts. A better understanding of important genes that contribute to important floral development and desired phenotypes will lead to improved rose cultivars. For this study, we analyzed ...[more]

PMID: 23171001

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Project description:The debate on the origin and evolution of flowers has recently entered the field of developmental genetics, with focus on the design of the ancestral floral regulatory program. Flowers can differ dramatically among angiosperm lineages, but in general, sterile perianth organs surrounding stamens (male reproductive organs) and carpels (female reproductive organs) constitute the basic floral structure. However, the basal angiosperm lineages exhibit spectacular diversity in the number, arrangement, and structure, of floral organs, while the evolutionarily derived monocot and eudicot lineages share a far more uniform floral ground plan. As such, regulatory mechanisms underlying the archetypal floral plan, for instance that of the eudicot genetic model Arabidopsis thaliana, are unlikely to apply to the original flowers. Here we show that broadly overlapping transcriptional programs characterise the floral transcriptome of the basal angiosperm Persea americana (avocado), while floral gene expression domains are typically organ-specific in Arabidopsis. Our findings extend the âfading bordersâ model for basal angiosperms from organ identity genes to the downstream floral transcriptome, and suggest that the combinatorial mechanism for organ identity may not operate in basal angiosperms as it does in Arabidopsis. Furthermore, fading expression of components of the stamen transcriptome in central and peripheral regions of Persea flowers resembles the developmental program of the hypothesized gymnosperm âfloral progenitorâ. Accordingly, in contrast to the canalized organ-specific regulatory apparatus of Arabidopsis, floral development may have been originally regulated by overlapping transcriptional cascades with fading gradients of influence from focal to bordering organs. Expression profiles of inflorescence buds, pre-meiotic floral buds, inner and outer tepals, stamens, carpels, initiating fruit, and leaves were assessed in an interwoven double loop design for eight samples with 16 arrays. Sample materials were collected from two individuals (biological replicates) cultivated on the University of Floridaâs Gainesville campus, and RNA was isolated twice for technical replication. Thus, four RNA extractions from each of the eight tissue types listed above were individually labeled with Cy3 (twice) or Cy5 (twice) and hybridized with four other Cy3 or Cy5 labeled samples as a dual channel array system.

Dataset Information

Deep sequencing and analysis of small RNAs from the flowers of four Rosa

Publications

Small RNA and transcriptome deep sequencing proffers insight into floral gene regulation in Rosa cultivars.

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