Publications related to epigenetics and protein glycosylation:
Klasić M, Markulin D, Vojta A, Samaržija I, Biruš I, Dobrinić P, Ventham NT, Trbojević Akmačić I, Šimurina M, Štambuk J, Razdorov G, Kennedy NA, Satsangi J, Dias AM, Pinho S, Annese V, Latiano A, D’Inca R, IBD consortium, Lauc G, Zoldoš V (2018) Promoter methylation of the MGAT3 and BACH2 genes correlates with the composition of the immunoglobulin G glycome in inflammatory bowel disease. Clinical Epigenetics, 10:75. doi:10.1186/s13148-018-0507-y
Ventham NT, Kennedy NA, Adams AT, Kalla R, Heath S, O’Leary KR, Drummond, IBD BIOM consortium, IBD CHARACTER consortium, Wilson C, Gut IG, Nimmo ER, Satsangi J (2016) Integrative epigenome-wide analysis demonstrates that DNA methylation may mediate genetic risk in inflammatory bowel disease. Nature Communications, 7:13507, doi:10.1038/ncomms13507
Markulin D, Vojta A, Samaržija I, Gamulin M, Bečeheli I, Jukić I, Maglov Č, Zoldoš V, Fučić A (2017) Association between RASSF1 promoter methylation and testicular germ cell tumor:a meta-analysis and a cohort study. Cancer Genomics and Proteomics, 14(5): 363 – 372, doi:10.21873/cgp.20046
Hinneburg H, Korać P, Schirmeister F, Gasparov S, Seeberger PH, Zoldoš V, Kolarich D (2017) Unlocking cancer glycomes form histopathological formalin-fixed and paraffin embedded (FFPE) tissue microdissections. Molecular Cell Proteomics, 16(4): 524 –536, doi:10.1074/mcp.M116.062414
Klasić M, Krištić J, Korać P, Horvat T, Markulin D, Vojta A, Reiding KR, Wuhrer M, Lauc G, Zoldoš V (2016) DNA hypomethylation upregulates expression of MGAT3 gene in HepG2 cells and leads to changes in N-glycosylation of secreted proteins. Scientific Reports, 6, 24363, doi:10.1038/srep24363
Vojta A, Dobrinić P, Tadić V, Bočkor L, Korać P, Julg B, Klasić M, Zoldoš V (2016) Repurposing the CRISPR-Cas9 system for targeted DNA methylation. Nucleic Acids Research, 44(12): 5615 – 5628, doi:10.1093/nar/gkw159
Vojta A, Samaržija I, Bočkor I, Zoldoš V (2016) Glyco-genes change expression in cancer through aberrant methylation. BBA General Subjects, 1860(8): 1776 – 1785, doi:10.1016/j.bbagen.2016.01.002
Theodoratou E, Campbell H, Ventham NT, Kolarich D, Pučić-Baković M, Zoldoš V, Fernandes D, Pemberton IK, Rudan I, Kennedy NA, Wuhrer M, Nimmo E, Annese V, McGovern DPB, Satsangi J, and Lauc G (2014) The role of glycosylation in IBD, Nature Rev Gastroenterol Hepatol, 11(10): 588 – 600, doi:10.1038/nrgastro.2014.78
Lauc G, Krištić J, Zoldoš V (2014) Glycans – the third revolution in evolution. Frontiers in Genetics, 5(145): 1 – 7, doi:10.3389/fgene.2014.00145
Krištić J, Vučković F, Menni C, Klarić L, Keser T, Beceheli I, Pučić-Baković M, Novokmet M, Mangino M, Thaqi K, Rudan P, Novokmet N, Šarac J, Missoni S, Kolčić I, Polašek O, Rudan I, Campbell H, Hayward C, Aulchenko Y, Valdes A, Wilson JF, Gornik O, Primorac D, Zoldoš V, Spector T and Lauc G (2014) Glycans are a novel biomarker of chronological and biological age. J Gerontol Biol Sci Med Sci, 69(7): 779 – 789, doi:10.1093/gerona/glt190
Lauc G, Vojta A, Zoldoš V (2014) Epigenetic regulation of glycosylation is the quantum mechanics of biology. BBA General Subjects, 1840(1): 65 – 70, doi:10.1016/j.bbagen.2013.08.017
Menni C, Keser T, Mangino M, Bell JT, Erte I, Akmačić I, Vučković F, Pučić Baković M, Gornik O, McCarthy MI, Zoldoš V (shared last author), Spector TD, Lauc G, Valdes A (2013) Glycosylation of Immunoglobulin G: Role of genetic and epigenetic influences. PLoS ONE, 8(12):e82558, doi:10.1371/journal.pone.0082558
Vojta A, Zoldoš V (2013) Adaptation or Malignant Transformation: the Two Faces of Epigenetically Mediated Response to Stress. BioMed Research International, article ID 954060, doi:10.1155/2013/954060
Horvat T, Deželjin M, Redžić I, Barišić D, Herak-Bosnar M, Lauc G, Zoldoš V (2013) Reversibility of Membrane N-Glycome of HeLa Cells upon Treatment with Epigenetic Inhibitors. PLoS ONE, 8(1):e54672, doi:10.1371/journal.pone.0054672
Zoldoš V, Horvat T, Lauc G (2013) Glycomics meets genomics, epigenomics and other high throughput omics for system biology studies. Curr Opin Chem Biol, 17:34-40, doi:10.1016/j.cbpa.2012.12.007
Zoldoš V, Novokmet M, Beceheli I, Lauc G (2013) Genomics and epigenomics of the human glycome. Glycoconjugate J, 30:41-50, doi:10.1007/s10719-012-9397-y
Zoldoš V, Horvat T, Novokmet M, Cuenin C, Mužinić A, Pučić M, Huffman JE, Gornik O, Polašek O, Campbell H, Hayward C, Wright AF, Rudan I, Owen K, McCarthy IM, Herceg Z, Lauc G (2012) Epigenetic silencing of HNF1A associates with changes in the composition of the human plasma N-glycome. Epigenetics, 7:2, 164-172, doi:10.4161/epi.7.2.18918
Horvat T, Mužinić A, Barišić D, Herak Bosnar M, Zoldoš V (2012) Epigenetic modulation of HeLa cell membrane N-glycome. BBA General Subjects, 1820(9): 1412-1420, doi:10.1016/j.bbagen.2011.12.007
Horvat T, Zoldoš V, Lauc G (2011) Evolutional and clinical implications of the epigenetic regulation of protein glycosylation. Clinical Epigenetics, 2: 425- 432, doi:10.1007/s13148-011-0039-1
Lauc G, Zoldoš V (2011) The role of epigenetic regulation of membrane glycoconjugates in the attenuation of viral pandemics. Medical Hypothesis, 76(2): 214-216, doi:10.1016/j.mehy.2010.09.033
Zoldoš V, Grgurević S, Lauc G (2010) Epigenetic regulation of protein glycosylation. BioMolecular Concepts, 1: 253–261, doi:10.1515/bmc.2010.027
Lauc G, Zoldoš V (2010) Protein glycosylation – an evolutionary crossroad between genes and environment. Molecular BioSystems, 6: 2373 – 2379, doi:10.1039/c0mb00067a
Lauc G, Zoldoš V (2009) Epigenetic regulation of glycosylation could be a mechanism used by complex organisms to compete with microbes on an evolutionary scale. Medical Hypothesis, 73: 510-512, doi:10.1016/j.mehy.2009.03.059
Publications related to plant biology:
Zoldoš V, Biruš I, Muratović E, Šatović Z, Vojta A, Robin O, Pustahija F, Bogunić F, Vičić-Bočkor V, Šiljak-Yakovlev S (2018) Epigenetic differentiation of natural populations of Lilium bosniacum associated with contrasting habitat conditions. Genome Biology and Evolution, 10(1), 291-301, doi:10.1093/gbe/evy010
Siljak-Yakovlev S, Godelle B, Zoldos V, Vallès J, Garnatje T, Hidalgo O. (2017) Evolutionary implications of heterochromatin and rDNA in chromosome number and genome size during changes in dysploidy: a case study in Reichardia genus. PLoS One, 9;12(8):e0182318, doi:10.1371/journal.pone.0182318
Zoldoš V, Biruš I, Muratović E, Šatović Z, Vojta A, Robin O, Pustahija F, Bogunić F, Vičić Bočkor V, Šiljak-Yakovlev S (2017) Epigenetic differentiation of natural populations of Lilium bosniacum associated with contrasting habitat conditions. Genome Biology and Evolution 10(1):291-303. doi:10.1093/gbe/evy010
Siljak-Yakovlev S, Godelle B, Zoldoš V, Vallès J, Garnatje T, Hidalgo O (2017) Evolutionary implications of heterochromatin and rDNA in chromosome number and genome size during changes in dysploidy: a case study in Reichardia genus. PLoS One 9;12(8):e0182318. doi:10.1371/journal.pone.0182318
Vičić-Bočkor V, Barišić D, Horvat T, Maglica Ž, Vojta A. Zoldoš V (2014) Inhibition of DNA Methylation Alters Chromatin Organization, Nuclear Positioning and Activity of 45S rDNA Loci in Cycling Cells of Q. robur. PLoS One 5;9(8):e103954, doi:10.1371/journal.pone.0103954
Vičić V, Barišić D, Horvat T, Biruš I, Zoldoš V (2013) Epigenetic characterization of chromatin in cycling cells of pedunculate oak, Quercus robur L. Tree Genetics & Genomes, 9: 1247-1256, doi:10.1007/s11295-013-0632-x
Bauer N, Horvat T, Birušs I, Vičić V, Zoldoš V (2009) Nucleotide sequence, structural organization and length heterogeneity of ribosomal DNA intergenic spacer in Quercus petraea (Matt.) Liebl. and Q. robur L. Molecular Genetics and Genomics 281: 207-221, doi:10.1007/s00438-008-0404-8
Puizina J, Sviben T, Krajačić-Sokol I, Zoldoš-Pećnik V, Šiljak-Yakovlev S, Papeš D, Besendorfer V. (2008) Cytogenetic and molecular characterization of the Abies alba genome and its relationship with other members of the Pinaceae. Plant Biology 10:256-267, doi:10.1111/j.1438-8677.2007.00018.x
Nuber N, Gornik O, Lauc G, Bauer N, Žuljević A, Papeš D, Zoldoš V (2007) Genetic evidence for the identity of Caulerpa racemosa (Forsskål) J. Agardh (Caulerpales, Chlorophyta) in the Adriatic Sea. European Journal of Phycology 42(1): 113-120, doi:10.1080/09670260600933774
Šiljak-Yakovlev S, Peccenini S, Muratović E, Zoldoš V, Robin O, Vallès J (2003) Chromosomal differentiation and genome size in three European mountain Lilium species. Plant Systematics Evolution 236: 165-173, doi:10.1007/s00606-002-0240-y
Besendorfer V, Samardžija M, Zoldoš V, Šolić ME, Papeš D (2002) Chromosomal organization of ribosomal genes and NOR-associated heterochromatin, and NOR activity in some population of Allium commutatum Guss. (Alliaceae). Botanical Journal of Linnean Society 139:99-108, doi:10.1046/j.1095-8339.2002.00047.x
Šiljak-Yakovlev S, Cerbah M, Coulaud J, Stoian V, Brown SC, Zoldoš V, Jelenić S, Papeš D (2002) Nuclear DNA content, base composition, heterochromatin and rDNA in Picea omorika and Picea abies. Theoretical and Applied Genetics 104:505-512, doi:10.1007/s001220100755
Zoldoš V, Šiljak-Yakovlev S, Papeš D, Sarr A, Panaud O (2001) Representational Difference Analysis reveals DNA differences between Q. robur and Q. suber: an implication in the study of genome evolution in Quercus genus. Molecular Genetics and Genomics 265:234-241, doi:10.1007/s004380000420
Zoldoš V, Papeš D, Cerbah M, Panaud O, Besendorfer V, Šiljak-Yakovlev S (1999) Molecular-cytogenetic studies of ribosomal genes and heterochromatin reveal conserved genome organization among 11 Quercus species. Theoretical and Applied Genetics 99:969-977, doi:10.1007/s001220051404
Zoldoš V, Papeš D, Brown S, Panaud O, Šiljak-Yakovlev S (1998) Genome size and base composition of seven Quercus species: inter- and intra-population variation. Genome 41: 162-168, doi:10.1139/g98-006
Zoldoš V, Vidaković-Cifrek Ž, Tomić M, Papeš D (1997) Oil and gas industrial chemicals’ cytotoxicity studied by Allium test. Water, Air and Soil Pollution 94: 181-190, doi:10.1023/A:1026443305995
Besendorfer V, Zoldoš V, Peškan T, Krsnik-Rasol M, Littvay T, Papeš D (1996) Identification of potential cytogenetical and biochemical markers in bioindication of common oak forests. Phyton (Horn, Austria) 36(3): 139-146, [PDF]
Zoldoš-Pećnik V (2008) Genome Organization and Evolution in Genus Quercus (Fagaceae): Special Attention to Two European White Oaks Quercus petraea (Matt.) Liebl. and Q. robur L. Plant Genome: Biodiversity and Evolution / A.K. Sharma and A. Sharma (Eds.). Enfield, New Hampshire, USA: Science Publishers, 2008. Pp. 43-78; ISBN 9781578085071