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Table 2 Enrichment of GO terms in differentially expressed sequences in Phlebia sp. MG-60

From: Analysis of ethanol fermentation mechanism of ethanol producing white-rot fungus Phlebia sp. MG-60 by RNA-seq

GO_name

GO_id

Number of sequences

Log Fold Change

Z score

P-value

FDR

MF

ATP binding

GO:0005524

799

0.2985

6.1830

6.29E-10

1.4E-07

MF

nucleic acid binding

GO:0003676

233

0.4418

4.6111

4.01E-06

0.0004

MF

phosphogluconate dehydrogenase (decarboxylating) activity

GO:0004616

11

−2.2802

−4.2490

2.15E-05

0.0010

BP

pentose-phosphate shunt

GO:0006098

11

−2.2802

−4.2490

2.15E-05

0.0010

MF

transferase activity

GO:0016740

13

1.9417

4.2346

2.29E-05

0.0010

BP

fatty acid biosynthetic process

GO:0006633

11

2.0965

4.1939

2.74E-05

0.0010

MF

copper ion binding

GO:0005507

27

1.2629

4.0514

5.09E-05

0.0016

BP

tRNA aminoacylation for protein translation

GO:0006418

38

0.9948

3.8449

0.0001

0.0032

MF

aminoacyl-tRNA ligase activity

GO:0004812

41

0.9504

3.8284

0.0001

0.0032

MF

acyl-CoA dehydrogenase activity

GO:0003995

16

−1.7053

−3.7871

0.0002

0.0034

MF

oxidoreductase activity, acting on the CH-CH group of donors

GO:0016627

25

−1.3711

−3.7618

0.0002

0.0034

CC

integral component of membrane

GO:0016021

492

0.2125

3.7428

0.0002

0.0034

BP

intracellular protein transport

GO:0006886

81

0.6338

3.7239

0.0002

0.0034

BP

rRNA processing

GO:0006364

17

1.4230

3.5985

0.0003

0.0051

MF

nucleotide binding

GO:0000166

69

0.6564

3.5460

0.0004

0.0058

MF

nitronate monooxygenase activity

GO:0018580

16

−1.5292

−3.3773

0.0007

0.0102

MF

coenzyme binding

GO:0050662

76

0.5828

3.3485

0.0008

0.0106

BP

biosynthetic process

GO:0009058

73

0.5771

3.2533

0.0011

0.0141

MF

protein binding

GO:0005515

816

0.1157

3.2119

0.0013

0.0154

MF

DNA-directed RNA polymerase activity

GO:0003899

48

0.6911

3.0976

0.0020

0.0217

CC

membrane coat

GO:0030117

15

1.2752

3.0474

0.0023

0.0243

MF

methyltransferase activity

GO:0008168

77

0.5169

3.0342

0.0024

0.0243

MF

RNA binding

GO:0003723

107

0.4216

3.0033

0.0027

0.0256

CC

cytoplasm

GO:0005737

103

0.4287

2.9886

0.0028

0.0256

MF

structural molecule activity

GO:0005198

11

1.4658

2.9773

0.0029

0.0256

MF

DNA binding

GO:0003677

275

0.2301

2.9679

0.0030

0.0256

BP

ribosome biogenesis

GO:0042254

12

1.3692

2.9151

0.0036

0.0282

CC

membrane

GO:0016020

319

0.2020

2.9042

0.0037

0.0282

MF

magnesium ion binding

GO:0000287

27

0.8832

2.9037

0.0037

0.0282

MF

catalytic activity

GO:0003824

327

0.1926

2.8416

0.0045

0.0332

MF

oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor

GO:0016620

10

1.4184

2.7516

0.0059

0.0425

CC

small-subunit processome

GO:0032040

13

1.2130

2.7064

0.0068

0.0472

  1. GO gene ontology, PAGE parametric analysis of gene set enrichment, BP biological process, MF molecular function, CC cellular component, FDR False discovery rate, Log Fold Change values between fermenting and non-fermenting conditions were used to calculate Z scores. Log Fold change values of each GO terms upregulated in fermenting condition is represented by positive numbers and downregulated is represented by negative numbers
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BMC Genomics

ISSN: 1471-2164

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