SSRs distribution in the leaf transcriptome of <i>Q.pubescens</i>.

<p>SSRs distribution in the leaf transcriptome of <i>Q.pubescens</i>.</p

Summary of RNA-Seq and <i>de novo</i> sequence assembly for <i>Q. pubescens</i>.

<p>N75 length is defined as the length N for which 75% of all bases in the sequences are in a sequence of length L </p><p>N50 length is defined as the length N for which 50% of all bases in the sequences are in a sequence of length L </p><p>N25 length is defined as the length N for which 25% of all bases in the sequences are in a sequence of length L </p><p>Summary of RNA-Seq and <i>de novo</i> sequence assembly for <i>Q. pubescens</i>.</p

Histogram of the 30 most abundant InterPro domains revealed by the InterProScan annotation of the high quality <i>Quercus pubescens</i> transcript set.

<p>Histogram of the 30 most abundant InterPro domains revealed by the InterProScan annotation of the high quality <i>Quercus pubescens</i> transcript set.</p

Top 30 metabolic pathways in <i>Q. pubescens</i>.

<p>This table shows the KEGG metabolic pathways of plants that were well represented by unique sequences of <i>Quercus pubescens</i>. The number of sequences and enzymes involved are described</p

Histogram of GO classifications of assembled <i>Quercus pubescens</i> transcripts.

<p>Results are summarized for three main GO categories: biological process, cellular component and molecular function.</p

<i>Q. pubescens</i> contigs related to genes involved in drought avoidance in <i>Arabidopsis Thaliana.</i>

<p><i>Q. pubescens</i> contigs related to genes involved in drought avoidance in <i>Arabidopsis Thaliana.</i></p

KOG functional classification of all <i>Q. pubescens</i> transcripts.

<p>KOG functional classification of all <i>Q. pubescens</i> transcripts.</p

KEGG map of the DEGs involved in the flavonoid biosynthesis for the sweet basil leaf.

<p>Red boxes indicate overexpression in purple basil and green boxes overexpression in green basil.</p

Top 20 identified KEGG pathways.

<p>The top 20 distribution of categorization of basil transcripts to KEGG biochemical pathways.</p

<i>De Novo</i> Assembly and Comparative Transcriptome Analyses of Red and Green Morphs of Sweet Basil Grown in Full Sunlight

<div><p>Sweet basil (<i>Ocimum basilicum</i>), one of the most popular cultivated herbs worldwide, displays a number of varieties differing in several characteristics, such as the color of the leaves. The development of a reference transcriptome for sweet basil, and the analysis of differentially expressed genes in acyanic and cyanic cultivars exposed to natural sunlight irradiance, has interest from horticultural and biological point of views. There is still great uncertainty about the significance of anthocyanins in photoprotection, and how green and red morphs may perform when exposed to photo-inhibitory light, a condition plants face on daily and seasonal basis. We sequenced the leaf transcriptome of the green-leaved Tigullio (TIG) and the purple-leaved Red Rubin (RR) exposed to full sunlight over a four-week experimental period. We assembled and annotated 111,007 transcripts. A total of 5,468 and 5,969 potential SSRs were identified in TIG and RR, respectively, out of which 66 were polymorphic <i>in silico</i>. Comparative analysis of the two transcriptomes showed 2,372 differentially expressed genes (DEGs) clustered in 222 enriched Gene ontology terms. Green and red basil mostly differed for transcripts abundance of genes involved in secondary metabolism. While the biosynthesis of waxes was up-regulated in red basil, the biosynthesis of flavonols and carotenoids was up-regulated in green basil. Data from our study provides a comprehensive transcriptome survey, gene sequence resources and microsatellites that can be used for further investigations in sweet basil. The analysis of DEGs and their functional classification also offers new insights on the functional role of anthocyanins in photoprotection.</p></div