Abstract
The human genome comprises two large clusters of serine protease–inhibitor genes (SERPINs) originated by duplication events that occurred at different moments of vertebrate evolution. The 14q32.1 cluster includes 11 members, all sharing a similar gene structure to alpha-1-antitrypsin, and the 18q21.3 cluster comprises 10 members, characterized by their homology to chicken ovalbumin. Although the majority of these genes are widespread across mammalian species, some are restrained to certain phylogenetic groups, making the repertoire of each species unique. In primates, events of gene duplication and divergence were associated to the origin of SERPINA2 and SERPINB3. Evolutionary processes specific to the human lineage included the loss of SERPINA13, an ancient gene only kept in primates, and the pseudogenization of SERPINB11, a gene under strong constrains in other species. More recently in humans, natural selection acted in SERPINA2 and SERPINB11 favoring, on one hand, a nonfunctional allele carrying a 2 kb deletion and, on the other, a resurrected gene linked to a novel non-inhibitory function. Considering a possible role of SERPINs in inflammation and immunity, together with the perception of the impact of infectious diseases in the natural history of human populations and other species, raised the hypothesis of an evolution driven by host–pathogens interactions. Overall, gains and losses of genes seem to have had an important adaptive value in the long-term evolution of 14q32.1 and 18q21.3 clusters with current implications in SERPIN activities and effects in human diseases.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Ahmed ST, Darnell JE Jr (2009) Serpin B3/B4, activated by STAT3, promote survival of squamous carcinoma cells. Biochem Biophys Res Commun 378(4):821–825. doi:10.1016/j.bbrc.2008.11.147
Askew DJ, Askew YS, Kato Y, Turner RF, Dewar K, Lehoczky J, Silverman GA (2004) Comparative genomic analysis of the clade B serpin cluster at human chromosome 18q21: amplification within the mouse squamous cell carcinoma antigen gene locus. Genomics 84(1):176–184. doi:10.1016/j.ygeno.2004.01.015, S0888754304000412 [pii]
Askew DJ, Cataltepe S, Kumar V, Edwards C, Pace SM, Howarth RN, Pak SC, Askew YS, Bromme D, Luke CJ, Whisstock JC, Silverman GA (2007a) SERPINB11 is a new noninhibitory intracellular serpin. Common single nucleotide polymorphisms in the scaffold impair conformational change. J Biol Chem 282(34):24948–24960. doi:10.1074/jbc.M703182200, M703182200 [pii]
Askew DJ, Coughlin P, Bird PI (2007b) Mouse serpins and transgenic studies. In: Silverman GA, Lomas DA (eds) Molecular and cellular aspects of the serpinopathies and disorders in serpin activity. World Scientific Publishing, Singapore, pp 101–129
Atchley WR, Lokot T, Wollenberg K, Dress A, Ragg H (2001) Phylogenetic analyses of amino acid variation in the serpin proteins. Mol Biol Evol 18(8):1502–1511
ATS/ERS (2003) American Thoracic Society/European Respiratory Society statement: standards for the diagnosis and management of individuals with alpha-1 antitrypsin deficiency. Am J Respir Crit Care Med 168(7):818–900. doi:10.1164/rccm.168.7.818, 168/7/818 [pii]
Bao JJ, Reed-Fourquet L, Sifers RN, Kidd VJ, Woo SL (1988) Molecular structure and sequence homology of a gene related to alpha 1-antitrypsin in the human genome. Genomics 2(2):165–173, 0888-7543(88)90099-7 [pii]
Benarafa C, Remold-O’Donnell E (2005) The ovalbumin serpins revisited: perspective from the chicken genome of clade B serpin evolution in vertebrates. Proc Natl Acad Sci USA 102(32):11367–11372. doi:10.1073/pnas.0502934102, 0502934102 [pii]
Christiansen HE, Schwarze U, Pyott SM, AlSwaid A, Al Balwi M, Alrasheed S, Pepin MG, Weis MA, Eyre DR, Byers PH (2010) Homozygosity for a missense mutation in SERPINH1, which encodes the collagen chaperone protein HSP47, results in severe recessive osteogenesis imperfecta. Am J Hum Genet 86(3):389–398. doi:10.1016/j.ajhg.2010.01.034, S0002-9297(10)00077-7 [pii]
da Fonseca RR, Kosiol C, Vinar T, Siepel A, Nielsen R (2010) Positive selection on apoptosis related genes. FEBS Lett 584(3):469–476. doi:10.1016/j.febslet.2009.12.022
Fregonese L, Stolk J, Frants RR, Veldhuisen B (2008) Alpha-1 antitrypsin Null mutations and severity of emphysema. Respir Med 102(6):876–884. doi:10.1016/j.rmed.2008.01.009
Futamura A, Stratikos E, Olson ST, Gettins PG (1998) Change in environment of the P1 side chain upon progression from the Michaelis complex to the covalent serpin-proteinase complex. Biochemistry 37(38):13110–13119. doi:10.1021/bi981234m, bi981234m [pii]
Gomes S, Marques PI, Matthiesen R, Seixas S (2014) Adaptive evolution and divergence of SERPINB3: a young duplicate in great Apes. PLoS One 9(8), e104935. doi:10.1371/journal.pone.0104935
Gooptu B, Dickens JA, Lomas DA (2014) The molecular and cellular pathology of alpha(1)-antitrypsin deficiency. Trends Mol Med 20(2):116–127. doi:10.1016/j.molmed.2013.10.007
Green RE, Malaspinas AS, Krause J, Briggs AW, Johnson PL, Uhler C, Meyer M, Good JM, Maricic T, Stenzel U, Prufer K, Siebauer M, Burbano HA, Ronan M, Rothberg JM, Egholm M, Rudan P, Brajkovic D, Kucan Z, Gusic I, Wikstrom M, Laakkonen L, Kelso J, Slatkin M, Paabo S (2008) A complete Neandertal mitochondrial genome sequence determined by high-throughput sequencing. Cell 134(3):416–426. doi:10.1016/j.cell.2008.06.021, S0092-8674(08)00773-3 [pii]
Hedges SB, Dudley J, Kumar S (2006) TimeTree: a public knowledge-base of divergence times among organisms. Bioinformatics 22(23):2971–2972. doi:10.1093/bioinformatics/btl505, btl505 [pii]
Heit C, Jackson BC, McAndrews M, Wright MW, Thompson DC, Silverman GA, Nebert DW, Vasiliou V (2013) Update of the human and mouse SERPIN gene superfamily. Hum Genomics 7:22. doi:10.1186/1479-7364-7-22
Hofker MH, Nelen M, Klasen EC, Nukiwa T, Curiel D, Crystal RG, Frants RR (1988) Cloning and characterization of an alpha 1-antitrypsin like gene 12 KB downstream of the genuine alpha 1-antitrypsin gene. Biochem Biophys Res Commun 155(2):634–642
Irving JA, Pike RN, Lesk AM, Whisstock JC (2000) Phylogeny of the serpin superfamily: implications of patterns of amino acid conservation for structure and function. Genome Res 10(12):1845–1864
Irving JA, Cabrita LD, Kaiserman D, Worrall MM, Whisstock JC (2007) Evolution and classification of the serpin superfamily. In: Silverman GA, Lomas DA (eds) Molecular and cellular aspects of the serpinopathies and disorders in serpin activity. World Scientific Publishing, Singapore, pp 1–33
Janciauskiene SM, Bals R, Koczulla R, Vogelmeier C, Kohnlein T, Welte T (2011) The discovery of alpha1-antitrypsin and its role in health and disease. Respir Med 105(8):1129–1139. doi:10.1016/j.rmed.2011.02.002
Jonigk D, Al-Omari M, Maegel L, Muller M, Izykowski N, Hong J, Hong K, Kim SH, Dorsch M, Mahadeva R, Laenger F, Kreipe H, Braun A, Shahaf G, Lewis EC, Welte T, Dinarello CA, Janciauskiene S (2013) Anti-inflammatory and immunomodulatory properties of alpha1-antitrypsin without inhibition of elastase. Proc Natl Acad Sci USA 110(37):15007–15012. doi:10.1073/pnas.1309648110
Kalis M, Kumar R, Janciauskiene S, Salehi A, Cilio CM (2010) alpha 1-antitrypsin enhances insulin secretion and prevents cytokine-mediated apoptosis in pancreatic beta-cells. Islets 2(3):185–189. doi:10.4161/isl.2.3.11654
Kanaji S, Tanaka Y, Sakata Y, Takeshita K, Arima K, Ohta S, Hansell EJ, Caffrey C, Mottram JC, Lowther J, Donnelly S, Stack C, Kadowaki T, Yamamoto K, McKerrow JH, Dalton JP, Coombs GH, Izuhara K (2007) Squamous cell carcinoma antigen 1 is an inhibitor of parasite-derived cysteine proteases. FEBS Lett 581(22):4260–4264. doi:10.1016/j.febslet.2007.07.072
Kantyka T, Plaza K, Koziel J, Florczyk D, Stennicke HR, Thogersen IB, Enghild JJ, Silverman GA, Pak SC, Potempa J (2011) Inhibition of Staphylococcus aureus cysteine proteases by human serpin potentially limits staphylococcal virulence. Biol Chem 392(5):483–489. doi:10.1515/BC.2011.044
Law RH, Zhang Q, McGowan S, Buckle AM, Silverman GA, Wong W, Rosado CJ, Langendorf CG, Pike RN, Bird PI, Whisstock JC (2006) An overview of the serpin superfamily. Genome Biol 7(5):216. doi:10.1186/gb-2006-7-5-216, gb-2006-7-5-216 [pii]
Luke C, Schick C, Tsu C, Whisstock JC, Irving JA, Bromme D, Juliano L, Shi GP, Chapman HA, Silverman GA (2000) Simple modifications of the serpin reactive site loop convert SCCA2 into a cysteine proteinase inhibitor: a critical role for the P3' proline in facilitating RSL cleavage. Biochemistry 39(24):7081–7091
Lysvand H, Hagen L, Klubicka L, Slupphaug G, Iversen OJ (2014) Psoriasis pathogenesis - Pso p27 is generated from SCCA1 with chymase. Biochim Biophys Acta 1842(5):734–738. doi:10.1016/j.bbadis.2014.02.005
Mala JG, Rose C (2010) Interactions of heat shock protein 47 with collagen and the stress response: an unconventional chaperone model? Life Sci 87(19-22):579–586. doi:10.1016/j.lfs.2010.09.024, S0024-3205(10)00412-1 [pii]
Malmstrom E, Morgelin M, Malmsten M, Johansson L, Norrby-Teglund A, Shannon O, Schmidtchen A, Meijers JC, Herwald H (2009) Protein C inhibitor--a novel antimicrobial agent. PLoS Pathog 5(12), e1000698. doi:10.1371/journal.ppat.1000698
Mansuy-Aubert V, Zhou QL, Xie X, Gong Z, Huang JY, Khan AR, Aubert G, Candelaria K, Thomas S, Shin DJ, Booth S, Baig SM, Bilal A, Hwang D, Zhang H, Lovell-Badge R, Smith SR, Awan FR, Jiang ZY (2013) Imbalance between neutrophil elastase and its inhibitor alpha1-antitrypsin in obesity alters insulin sensitivity, inflammation, and energy expenditure. Cell Metab 17(4):534–548. doi:10.1016/j.cmet.2013.03.005
Marques PI, Ferreira Z, Martins M, Figueiredo J, Silva DI, Castro P, Morales-Hojas R, Simoes-Correia J, Seixas S (2013) SERPINA2 is a novel gene with a divergent function from SERPINA1. PLoS One 8(6), e66889. doi:10.1371/journal.pone.0066889
Marsden MD, Fournier RE (2005) Organization and expression of the human serpin gene cluster at 14q32.1. Front Biosci 10:1768–1778, 1660 [pii]
Munch J, Standker L, Adermann K, Schulz A, Schindler M, Chinnadurai R, Pohlmann S, Chaipan C, Biet T, Peters T, Meyer B, Wilhelm D, Lu H, Jing W, Jiang S, Forssmann WG, Kirchhoff F (2007) Discovery and optimization of a natural HIV-1 entry inhibitor targeting the gp41 fusion peptide. Cell 129(2):263–275. doi:10.1016/j.cell.2007.02.042
Namciu SJ, Friedman RD, Marsden MD, Sarausad LM, Jasoni CL, Fournier RE (2004) Sequence organization and matrix attachment regions of the human serine protease inhibitor gene cluster at 14q32.1. Mamm Genome 15(3):162–178. doi:10.1007/s00335-003-2311-y
Pellegrini A, Hulsmeier AJ, Hunziker P, Thomas U (2004) Proteolytic fragments of ovalbumin display antimicrobial activity. Biochim Biophys Acta 1672(2):76–85. doi:10.1016/j.bbagen.2004.02.010, S0304416504000443 [pii]
Puente XS, Sanchez LM, Overall CM, Lopez-Otin C (2003) Human and mouse proteases: a comparative genomic approach. Nat Rev Genet 4(7):544–558. doi:10.1038/nrg1111, nrg1111 [pii]
Puente XS, Sanchez LM, Gutierrez-Fernandez A, Velasco G, Lopez-Otin C (2005) A genomic view of the complexity of mammalian proteolytic systems. Biochem Soc Trans 33(Pt 2):331–334. doi:10.1042/BST0330331, BST0330331 [pii]
Rehault-Godbert S, Labas V, Helloin E, Herve-Grepinet V, Slugocki C, Berges M, Bourin MC, Brionne A, Poirier JC, Gautron J, Coste F, Nys Y (2013) Ovalbumin-related protein X is a heparin-binding ov-serpin exhibiting antimicrobial activities. J Biol Chem 288(24):17285–17295. doi:10.1074/jbc.M113.469759
Reich D, Patterson N, Kircher M, Delfin F, Nandineni MR, Pugach I, Ko AM, Ko YC, Jinam TA, Phipps ME, Saitou N, Wollstein A, Kayser M, Paabo S, Stoneking M (2011) Denisova admixture and the first modern human dispersals into southeast Asia and oceania. Am J Hum Genet 89(4):516–528. doi:10.1016/j.ajhg.2011.09.005, S0002-9297(11)00395-8 [pii]
Schick C, Kamachi Y, Bartuski AJ, Cataltepe S, Schechter NM, Pemberton PA, Silverman GA (1997) Squamous cell carcinoma antigen 2 is a novel serpin that inhibits the chymotrypsin-like proteinases cathepsin G and mast cell chymase. J Biol Chem 272(3):1849–1855
Schick C, Bromme D, Bartuski AJ, Uemura Y, Schechter NM, Silverman GA (1998a) The reactive site loop of the serpin SCCA1 is essential for cysteine proteinase inhibition. Proc Natl Acad Sci USA 95(23):13465–13470
Schick C, Pemberton PA, Shi GP, Kamachi Y, Cataltepe S, Bartuski AJ, Gornstein ER, Bromme D, Chapman HA, Silverman GA (1998b) Cross-class inhibition of the cysteine proteinases cathepsins K, L, and S by the serpin squamous cell carcinoma antigen 1: a kinetic analysis. Biochemistry 37(15):5258–5266. doi:10.1021/bi972521d
Seixas S, Suriano G, Carvalho F, Seruca R, Rocha J, Di Rienzo A (2007) Sequence diversity at the proximal 14q32.1 SERPIN subcluster: evidence for natural selection favoring the pseudogenization of SERPINA2. Mol Biol Evol 24(2):587–598. doi:10.1093/molbev/msl187, msl187 [pii]
Seixas S, Ivanova N, Ferreira Z, Rocha J, Victor BL (2012) Loss and gain of function in human SERPINB11: an example of a gene under selection on standing variation, with implications for host-pathogen interactions. PLoS One 7, e32518
Seo EJ, Lee C, Yu MH (2002) Concerted regulation of inhibitory activity of alpha 1-antitrypsin by the native strain distributed throughout the molecule. J Biol Chem 277(16):14216–14220. doi:10.1074/jbc.M110272200, M110272200 [pii]
Silverman GA, Whisstock JC, Askew DJ, Pak SC, Luke CJ, Cataltepe S, Irving JA, Bird PI (2004) Human clade B serpins (ov-serpins) belong to a cohort of evolutionarily dispersed intracellular proteinase inhibitor clades that protect cells from promiscuous proteolysis. Cell Mol Life Sci 61(3):301–325. doi:10.1007/s00018-003-3240-3
Stein PE, Carrell RW (1995) What do dysfunctional serpins tell us about molecular mobility and disease? Nat Struct Biol 2(2):96–113
van Gent D, Sharp P, Morgan K, Kalsheker N (2003) Serpins: structure, function and molecular evolution. Int J Biochem Cell Biol 35(11):1536–1547, 10.1016/s1357-2725(03)00134-1
Vaz Rodrigues L, Costa F, Marques P, Mendonca C, Rocha J, Seixas S (2012) Severe alpha-1 antitrypsin deficiency caused by Q0(Ourem) allele: clinical features, haplotype characterization and history. Clin Genet 81(5):462–469. doi:10.1111/j.1399-0004.2011.01670.x
Vidalino L, Doria A, Quarta S, Zen M, Gatta A, Pontisso P (2009) SERPINB3, apoptosis and autoimmunity. Autoimmun Rev 9(2):108–112. doi:10.1016/j.autrev.2009.03.011
Vidalino L, Doria A, Quarta SM, Crescenzi M, Ruvoletto M, Frezzato F, Trentin L, Turato C, Parolin MC, Ghirardello A, Iaccarino L, Cavalletto L, Chemello L, Gatta A, Pontisso P (2012) SERPINB3 expression on B-cell surface in autoimmune diseases and hepatitis C virus-related chronic liver infection. Exp Biol Med 237(7):793–802. doi:10.1258/ebm.2012.012024
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2015 Springer International Publishing Switzerland
About this chapter
Cite this chapter
Seixas, S. (2015). The Human SERPIN Repertoire and the Evolution of 14q32.1 and 18q21.3 Gene Clusters. In: Geiger, M., Wahlmüller, F., Furtmüller, M. (eds) The Serpin Family. Springer, Cham. https://doi.org/10.1007/978-3-319-22711-5_1
Download citation
DOI: https://doi.org/10.1007/978-3-319-22711-5_1
Publisher Name: Springer, Cham
Print ISBN: 978-3-319-22710-8
Online ISBN: 978-3-319-22711-5
eBook Packages: Biomedical and Life SciencesBiomedical and Life Sciences (R0)