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Table 1 Target of banana known miRNAs (or families)a

From: Banana sRNAome and degradome identify microRNAs functioning in differential responses to temperature stress

miRNA

Target

ASb

Categoryc

Reads at the cleavage site (tpb)d

Target annotation

Conserved targets for known miRNAs

 miR156

Achr6T36010

3

0

722.4

Putative Squamosa promoter-binding-like protein 12

Achr10T23280

1

0

214.0

Putative Squamosa promoter-binding-like protein 12

Achr5T21990

1

0

240.8

Putative Squamosa promoter-binding-like protein 12

Achr10T02970

1

0

989.9

Putative Squamosa promoter-binding-like protein 12

Achr3T11170

1.5

0

124.9

Putative Squamosa promoter-binding-like protein 17

Achr5T25090

1.5

0

133.8

Putative Squamosa promoter-binding-like protein 18

Achr7T22940

1.5

0

2060.1

Putative Squamosa promoter-binding-like protein 16

Achr8T25550

1.5

0

124.9

Putative Squamosa promoter-binding-like protein 17

 miR159

Achr2T12990

3.5

0

693.8

Putative Transcription factor PCF6

Achr4T22960

3.5

0

292.5

Putative Transcription factor PCF6

Achr4T31520

3.5

0

194.4

Putative Transcription factor PCF6

Achr5T02530

3.5

0

881.1

Putative Transcription factor PCF6

Achr7T01160

3.5

0

881.1

Putative Transcription factor PCF6

Achr5T06660

3

0

160.5

Putative Transcription factor TCP4

Achr8T19990

3

0

454.8

Putative Transcription factor TCP4

Achr10T0102

3

0

481.6

Putative Transcription factor TCP4

 miR160

Achr6T18900

1.5

0

321.1

Putative Auxin response factor 22

Achr9T29480

1.5

0

695.6

Putative Auxin response factor 17

Achr11T00640

2

0

27,825.2

Auxin response factor 18

Achr5T18540

2

0

13,029.7

Auxin response factor 18

Achr5T14630

2

0

4053.4

Auxin response factor 18

Achr5T03960

2

0

6822.5

Auxin response factor 18

Achr4T18240

2

0

4080.1

Auxin response factor 18

Achr8T18930

2

0

3852.7

Auxin response factor 18

 miR164

Achr3T23360

3

0

936.4

Putative NAC domain-containing protein

Achr9T27530

3.5

0

1337.7

no apical meristem protein, putative

Achr9T26140

2

0

6207.1

NAC domain-containing protein

Achr9T10210

2

0

20,347.1

NAC domain-containing protein

 miR167

AchrUn_randomT06470

3.5

0

5468.7

Auxin response factor 12

Achr11T25770

4

0

5415.2

Auxin response factor 6

Achr3T23290

4

0

5281.4

Auxin response factor 17

Achr5T00590

4

0

4535.0

Auxin response factor 17

Achr5T26580

4

0

5281.4

Auxin response factor 6

Achr5T02450

4

0

4454.7

Auxin response factor 6

 miR168

Achr3T27070

4

0

1150.5

Protein argonaute 1B

 miR171

Achr4T07190

3

0

165,720.2

Putative Scarecrow-like protein 15

Achr3T29970

3

0

8802.4

Putative Scarecrow-like protein 15

Achr4T03460

3

0

508.3

Putative Scarecrow-like protein 15

Achr5T20860

2

0

1551.8

Putative Scarecrow-like protein 6

 miR393

Achr6T20580

3

0

4666.5

Transport inhibitor response 1-like protein

Achr6T16510

3

0

3424.6

Transport inhibitor response 1-like protein

Achr6T08000

3

0

4882.8

Transport inhibitor response 1-like protein

Achr9T01140

3

0

4693.3

Transport inhibitor response 1-like protein

AchrUn_randomT10710

2

0

3917.4

Transport inhibitor response 1-like protein

Achr10T12000

2

0

3244.0

Transport inhibitor response 1-like protein

 miR396

Achr3T15140

2.5

0

615.4

growth regulating factor protein, putative

Achr7T27480

2.5

0

615.4

growth-regulating factor, putative

 miR535

Achr10T02970

4

0

989.9

Putative Squamosa promoter-binding-like protein 12

Achr4T05720

4

0

695.6

Putative Squamosa promoter-binding-like protein 12

Non-conserved targets for known miRNAs

 miR156

Achr10T05030

3.5

2

240.8

CCR4-NOT transcription factor, putative, expressed

 miR164

AchrUn_randomT19770

3

0

20,775.2

Hypothetical protein

Achr11T02240

4

4

13.4

Probable aquaporin TIP1–1

Achr8T12920

4

4

13.4

Probable aquaporin TIP1–1

 miR396

Achr5T20170

4

1

267.5

Hypothetical protein

Achr8T26530

2.5

0

615.4

metalloendopeptidase/ metallopeptidase/ zinc ion binding protein, putative

 miR528

AchrUn_randomT22730

3.5

0

1172.8

Putative Polyphenol oxidase A1, chloroplastic

AchrUn_randomT25220

3.5

4

8.9

Putative Polyphenol oxidase A1, chloroplastic

Achr8T34370

2.5

2

615.4

Polyphenol oxidase, chloroplastic

 miR530

Achr2T17590

1

0

2354.4

Hypothetical protein

 miR535

Achr4T12470

4

0

668.9

Putative uncharacterized protein

 miR828

Achr2T17960

3

0

107.0

Hypothetical protein

  1. a A detailed list was included in Additional file 1: Table S5. b The alignment score (AS) threshold was set to 4 for known miRNAs. c 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. d Reads at the cleavage site were normalized to transcripts per billion (tpb)
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BMC Genomics

ISSN: 1471-2164

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