Unique expression, processing regulation, and regulatory network of peach (Prunus persica) miRNAs

BMC Plant Biology

Table 3 Targets for peach-specific miRNAs identified by degradome sequencing

miRNA	Target gene^a	Align score^b	Normalized reads at cleavage site (tpb)^c	Category^d	Target gene annotation
miRC2	ppa010261m	5	751.0	2	Zinc finger protein
miRC3	ppb024266m	3.5	350.5	2	NBS-LRR class disease resistance protein
miRC4	ppa012465m	4.5	10263.4	2	Unknown protein
miRC5	ppb024266m	5	350.5	2	NBS-LRR class disease resistance protein
miRC6a	ppa019098m	4	40.1	2	Pentatricopeptide (PPR) repeat-containing protein
miRC6a	ppa020475m	1	5997.8	0	Pentatricopeptide (PPR) repeat-containing protein
miRC6a	ppa023796m	5	15.0	4	Pentatricopeptide (PPR) repeat-containing protein
miRC6b	ppa019098m	4.5	40.1	2	Pentatricopeptide (PPR) repeat-containing protein
miRC6b	ppa020475m	1.5	5997.8	0	Pentatricopeptide (PPR) repeat-containing protein
miRC12	ppa000294m	5	600.8	2	Protein kinase family protein
miRC12	ppa000823m	5	851.1	2	Translation initiation factor
miRC13	ppa008890m	5	2353.1	2	Esterase/lipase/thioesterase family protein
miRC13	ppa010397m	4.5	100.1	3	Allene-oxide cyclase
miRC16	ppa018545m	5	100.1	3	FAR1-related sequence 3; zinc ion binding
miRC16	ppa022612m	5	100.1	3	FAR1-related sequence 3; zinc ion binding
miRC29	ppa002618m	5	50.1	3	RNA binding / translation initiation factor
miRC29	ppa002620m	5	50.1	3	RNA binding / translation initiation factor
miRC30	ppa004763m	4.5	25.0	4	Catalase
miRC45	ppa002666m	5	1552.0	2	Vernalization independence; DNA binding

^a Target gene is the identified transcript from the peach transcriptome (http://www.rosaceae.org/node/35).
^b Align score is calculated according to [7].
^c tpb, transcripts per billion, according to [21].
^d Category 0: >1 raw read at the position, abundance at position is equal to the maximum on the transcript, and there is only one maximum on the transcript; Category 1: >1 raw read at the position, abundance at position is equal to the maximum on the transcript, and there is more than one maximum position on the transcript; Category 2: >1 raw read at the position, abundance at position is less than the maximum but higher than the median for the transcript; Category 3: >1 raw read at the position, abundance at position is equal to or less than the median for the transcript; Category 4: Only 1 raw read at the position.

ISSN: 1471-2229