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Table 1 Major proteins (>0.1 %) of the zebra finch eggshell calcified layer

From: The calcified eggshell matrix proteome of a songbird, the zebra finch (Taeniopygia guttata)

Protein Accession iBAQ % iBAQ % in turkey 1 /quail 2 eggshell Abundance in chicken eggshell 3 (emPAI)
Ovalbumin(−like) gi|224045100 35.20 12.52/15.97 High (65.3)3a
Similar to ovocleidin-116 gi|224049274/H0YVI0 8.37 31.30/46.40 High (65.3)3a
Ovalbumin-related protein Y-like gi|224045098 5.60 0.43/0.21 Intermediate (3.8)3a
Ovalbumin-like (OVALX?) gi|224045096/H0YV21 4.08 <0.01/0.21 Intermediate (3.8)3a
BPIL1/Tenp-like H0Z7I9/gi|449486399 3.72 0.01/- Low (0.6)3a
Similar to serum albumin (ALB) gi|449499399/H0YTL4 2.93 2.57/0.39 High (113.5)3a
Similar to ovomucoid H0YQL9/gi|224067572 1.73 0.05/0.11 Intermediate (2.2)3a
gi|449512555/H1A0C8
Similar to Pigment epithelium-derived factor (PEDF) H0Z5S2/gi|449479753 1.62 0.64/0.31 Intermediate (6.0)3a
Similar to BPI fold-containing family B member 4/Ovocalyxin-36 gi|224078167/H0Z7K8 1.59 6.00/7.80 High (23.2)3a
Insulin-like growth factor-binding protein 5 (IGFBP5) H0Z3W8/gi|449506910 1.26 -/0.13 Low (0.6)3a
Similar to vitellogenin-2 (VIT2) gi|224057610/H0Z847 1.22 0.02/<0.01 Low (1.7)3a
Similar to ovostatin (A2M-1) H0ZS62 1.20 0.05/0.08 Low (1.5)3a
Similar to vitellogenin-1 (TPRXL) H0Z8U7/gi|224057648 1.08 0.01/0.01 Low (0.8)3a
Glutathione peroxidase 3 (GPX3) gi|401664564/H0YRF2 1.06 0.04/0.36 Intermediate (2.2)3a
Ubiquitin (C) B5G2Q3/gi|5822013 1.06 0.12/0.12 High (9.0)3a
Actin(s) H0Z0Q3/gi|224061779 1.05 -/0.36 High (9.0)3a
Putative apolipoprotein A-I B5G356/gi|350538495 0.98 0.05/0.17 Intermediate (2.2)3a
Similar to mesothelin gi|449476510/H0ZYM3 0.91 <0.01/<0.01 Low (0.4)3a
Similar to Nucleobindin-2 (NUCB2) H0ZEB8/gi|449501999 0.76 0.23/0.07 Intermediate (7.3)3a
Similar to leukocyte antigen 86 (LY86) H0YVQ1/gi|224045162 0.72 <0.01/<0.01 Intermediate (0.3)3a
Similar to ovotransferrin (LTF) H0Z885/gi|449509524 0.69 2.22/0.19 High (22.9)3a
Similar to Sulfhydryl oxidase 1 (QSOX1) H1A439/gi|449509315 0.56 1.08/0.18 Intermediate (4.7)3a
Similar to Mucin-5 AC gi|449504198/H0ZGZ6/ 0.54 0.15/0.35 Low (1.4)3a
H0ZGY9/H0ZGW8
Similar to plasminogen (LPA-2) gi|224048112/H0ZML2 0.53 <0.01/- -
Similar to ovoinhibitor gi|449474881/H0YQL7 0.53 0.01/0.01 High (12.1)3a
Similar to cathepsin D (CTSD) H0ZGM2/gi|224050910 0.50 0.22/0.18 Intermediate (5.3)3a
Similar to multiple inositol polyphosphate phosphatase 1 (MINPP1) gi|224052234/H0Z3R0 0.43 <0.01/<0.01 Low (2.1)3a
Similar to ovocalyxin-32 (RARRES1) H0ZLS5/gi|449510033 0.40 −/− High (71.0)3a
Similar to Angiopoietin-related protein 3 (ANGPTL3) gi|224058351/H0ZHW1 0.39 −/− Low (2.0)3a
Fibronectin type III domain-containing protein 1 (FNDC1) gi|449497556/H0ZMA1 0.39 −/− Intermediate3b
Similar to tumor necrosis factor receptor superfamily member 6B (TNFRSF6B) gi|224078299/H0Z9P3 0.38 0.01/0.01 Intermediate3b
Calcitonin gene-related peptide 2 (CALCB)/ procalcitonin H0ZDU9/gi|224050809 0.37 -/0.01 -
Similar to N-acetyl-glucosamine-6-sulfatase (GNS) H0Z834/gi|449481578 0.36 0.04/0.03 Low (0.8)3a
Similar to Tetraspanin (TSPAN1) gi|449508571/H0ZCW3 0.33 −/− -
Similar to carbonic anhydrase 4(CA4) H0ZCC0/gi|449480381 0.32 0.35/0.03 Intermediate (2.9)3a
Similar to avidin H0YUD8/gi|224090240 0.30 2.67/1.95 Intermediate (2.2)3a
Similar to Lysyl oxidase 2 (LOXL2) H1A3U9/gi|449488345 0.30 0.01/0.04 Low (0.2)3a
Prostatic acid phosphatase-like; domain: Histidine phosphatase superfamily gi|449493197 0.29 −/− Low (1.6)3a
Similar to alpha-2-HS-glycoprotein (AHSG) gi|449509821/H0ZJJ6 0.29 0.01/- Low (1.3)3a
Similar to lactadherin (MFGE8) H0ZD74/gi|449471648 0.27 1.25/0.36 High (15.9)3a
Similar to stanniocalcin-1(STC1) H0Z285/gi|449488187 0.27 0.01/<0.01 Low (0.5)3a
Similar to 45 kDa calcium-binding protein (SDF4) H0Z0U7/gi|224080053 0.26 0.09/0.03 Intermediate (2.9)3a
Similar to ovostatin gi|449485099/H1A5U5 0.23 0.05/0.34 Low (1.5)3a
Putative cystatin B5G368/gi|197129295 0.22 1.67/0.11 High (45.4)3a
Similar to heat shock cognate 71 kDa protein (HSPA8) gi|224083318/H0YQE7 0.22 0.01/0.01 Low (1.23)3a
Putative peroxiredoxin 1 B5G0M2/gi|197128341 0.21 0.01/0.02 Low (1.0)3a
Semaphorin-3 F gi|224066001/H0Z7X2 0.21 <0.01/- -
Similar to epididymis-specific alpha-mannosidase (MAN2B2) H0ZIJ5/gi|449501297 0.21 0.06/0.02 Low (0.8)3a
Slit homolog 2 protein (SLIT2) H0ZH52/gi|449500994 0.21 0.01/0.01 Low (0.6)3a
Similar to glia-derived nexin (SERPINE2) gi|224060004/H0ZCA5 0.20 0.18/0.31 High (11.1)3a
Similar to proactivator polypeptide (PSAP-1) H0Z157/gi|449504732 0.20 0.06/0.12 High (9.0)3a
Peptidyl-prolyl cis-trans isomerase B B5G4N8/gi|350536587 0.19 -/0.06 High (13.7)3a
Similar to lysosomal Pro-X carboxypeptidase (PRCP) gi|224043680/H0ZRS7 0.19 -/<0.01 -
Renin/prorenin receptor (ATP6AP2) H0Z8C1/gi|449482762 0.19 0.05/0.03 Low (1.8)3a
Similar to cathepsin L1/L2 (CTSL1) H0YQQ3/gi|449513868 0.18 0.02/0.02 Low (0.2)3a
Similar to apovitellenin-1 (APOVLDLII) gi|224044051/H0ZT64 0.16 0.01/0.16 Low (1.5)3a
Alpha-enolase (ENO1) H0Z0D8/gi|224079993 0.16 0.01/0.02 Low (1.1)3a
Similar to beta-hexosaminidase subunit beta (HEXB) H0Z6E7/gi|224091413 0.16 0.03/<0.01 Low (0.6)3a
Similar to Netrin-3 (NTN3) gi|449475443/H0YYI9 0.15 −/− -
Similar to Carboxypeptidase (CTSA) H0Z6V7/gi|449486379 0.15 0.08/0.02 Intermediate (2.4)3a
Histone H4 B5FXC8/gi|350536313 0.14 0.04/0.03 Low (1.2)3a
EGF-containing fibulin-like extracellular matrix protein 1 (EFEMP1)/Fibulin-5 H0Z947/gi|224047478 0.14 0.02/- Low (0.2)3a
Ezrin (EZR) H0ZLB9/gi|449497375 0.14 <0.01/0.02 Low (1.2)3a
Syntenin-1 (SDCBP) H0ZLL3/gi|449494168 0.13 0.02/0.10 Intermediate (2.8)3a
Similar to hyaluronan and proteoglycan link protein 3 (HAPLN3) H0ZD86/gi|449471652 0.13 0.05/0.07 Low (1.2)3a
Similar to angiotensinogen (AGT) gi|224047800/H0ZI58 0.12 <0.01/0.01 Low (0.2)3a
Similar to vitamin K-dependent protein S (PROS1) H0ZTE6/gi|449485775 0.12 0.03/- Low (0.4)3a
L-lactate dehydrogenase B5G2G3/gi|310703675 0.11 0.01/0.01 Low (0.2)3a
Similar to ceroid-lipofuscinosis neuronal protein 5 (CLN5) H0ZQM7/gi|224043499 0.11 0.02/0.01 Low (0.6)3a
Similar to Riboflavin-binding protein H0ZCK8/gi|224058069 0.11 0.02/0.01 Low (0.7)3a
Similar to Out at first protein homolog (OAF) H0YQ63/gi|224083284 0.11 <0.01/0.03 Low (1.7)3a
Similar to alpha-2-antiplasmin gi|449480130/H0Z5Q3 0.11 0.60/0.80 Intermediate3b
Similar to solute carrier family 2, facilitated glucose transporter member 3 (SLC2A3) gi|449484853/H0ZSC5 0.11 -/0.01 Low (1.8)3a
Similar to nephronectin (NPNT) H0Z095/gi|449500286 0.11 0.02/0.01 Intermediate (3.8)3a
Similar to alpha-2-macroglobulin-like 1 H0ZSA0 0.11 -/0.01 Low (0.2)3a
  1. The complete list of accepted proteins/protein groups is shown in Supplementary file 3.1, data from [52];2, [53]; 3, estimate based on emPAI values (in brackets).3a, [30];3b, [38] (estimate based on peak intensities reported in this publication)