UPGMA dendrogram of the genetic relationships among seven buffalo breeds.

<p>The dendrogram was generated using the Nei similarity coefficient based on 69 polymorphic primer pairs.</p

EuKaryotic orthologous group (KOG) classification.

<p>Approximately 15,813 of the 86,017 unigenes with NR hits were grouped into 25 KOG classifications.</p

Frequency of classified repeat types of SSRs.

<p>The most abundant dinucleotide and trinucleotide motifs were AC/GT and AGC/CTG.</p

Pathway assignment based on the Kyoto Encyclopedia of Genes and Genomes (KEGG).

<p>(<b>A</b>) Classification based on cellular processes categories, (<b>B</b>) Classification based on environmental information processing categories, (<b>C</b>) Classification based on genetic information processing categories, (<b>D</b>) Classification based on human diseases categories, (<b>E</b>) Classification based on metabolism categories, and (<b>F</b>) Classification based on organismal systems categories.</p

Characteristics of the results of homology search for swamp buffalo unigenes.

<p>(<b>A</b>) Venn diagram of BLAST hits for unigenes against protein databases (E-value ≤1.0e-05). Numbers in the circles indicate the number of unigenes annotated by single or multiple databases, (<b>B</b>) E-value distribution of BLAST hits for each unique sequence (E-value ≤1.0e-05). (<b>C</b>) Identity distribution of BLAST hits for each sequence. (<b>D</b>) Species distribution of the top BLAST hits for the assembled unigenes (E-value ≤1.0e-05).</p

Gene ontology (GO) classification of assembled unigenes.

<p>A total of 14,439 unigenes with significant similarity in NR protein databases were assigned to GO classifications.</p

Flowchart of <i>de novo</i> assemble in swamp buffalo transcriptome and SSR discovery.

<p>Flowchart of <i>de novo</i> assemble in swamp buffalo transcriptome and SSR discovery.</p