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Table 4 Clusters of genes that were up- or down-regulated during diapause

From: Transcriptomics of diapause in an isogenic self-fertilizing vertebrate

Gene Cluster

List of Genes

No. of Dataa

Diapause versus

  

pre-Diapause

post-Diapause

Cardiac and Skeletal Muscle

bag3, myh2, mylk2, myo18b

21

UPb (1.5)

UP (1.9)

Immune System

a2m, c4a, hla-a, ifitml, mlfl, rhcg

27

UP (2.4)

-c

Extracellular Matrices (ECM)

tecta, clip2, comp, ctsl, col2a1, col9a1, colllal, col4a3bp, collOal, dspp, mucl, muc2, postn, tnc

237

-

DOWNd (−3.2)

Respiration

arg2, mt-atp8, mthfd2, mtco3, egln3, gimap4, hbal, hbb, irgm, ucp2, mpo, mt-nd2, noxl, ptges3, atpla2, tbxasl

126

-

DOWN (−1.6)

Development

teml, adm, faml23a, litaf, celal, fmnll, igfbp4, ill2b, mkl67, matnl, rbp2, bsphl, sqstml, spaca4, eed

114

-

DOWN (−1.7)

Other Cellular and Enzymatic Processes

agr2, agxt2l, asmt, c100r11, calu, hhat, nans, natterin-3, odcl, zg16

63

-

DOWN (−3.4)

Hormones

entpd5, fshr, sult2b1, zpldl

36

-

DOWN (−3.5)

Toxin-like Proteins

lntx-77, lntx-id, neovtx, rtx-s II, sntx

33

-

DOWN (−4.0)

Cytoskeleton

actal, actxl, ckap4, filipl, nlrp2, plsl, tubb

30

-

DOWN (−2.3)

Ion Binding

calr, hpx, umod

30

-

DOWN (−4.3)

Protein Modification

camk2nl, dusp27, mkrnl, fkbp9, gls2, klhl30, klhl38, mylk4, itgblbp3, papln, fkbp9, pdia4, tgm2, tgm3, ppp5c, prss2, tat, ubb, ubl5, ubell2, uhrfl

114

-

-

Nucleic Acid Modification

banfl, cmpkl, eeflal, mafb, muc5ac, myc, nfe2l1, papss2, pprcl, rcll, rn7sk, rps4yl, setdbl, slc28a3, srrm2

93

-

-

Carbohydrate Modification

b3gnt3, chia, ctl, floll, gale, gmds, nptx2, ugt2b17

54

-

-

Environmental Responses

faml34b, hspala, hspbl, mss5l, ota, per2, prrtl

51

-

-

Cell Signaling

cirhla, fbxo32, hhat, plaur, ywha, putative GPI-anchored proteins

30

-

-

Transporter Functions

fabp6, kpna2, slc15a1, slclal, tapl, tm4sf1

24

-

-

Unknown

n/a

381

-

DOWN (−2.0)

  1. aNo. of Data are from 3 diapause replicates and 3 genome/transcriptome references (RPKM and fold change data are listed in the Supplementary document);
  2. bAVERAGE(Log2(FoldChange)) ≥ 1.5;
  3. c-1.5 < AVERAGE(Log2(FoldChange)) < 1.5;
  4. dAVERAGE(Log2(FoldChange))≤1.5