{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2024,7,19]],"date-time":"2024-07-19T00:01:07Z","timestamp":1721347267731},"reference-count":107,"publisher":"Public Library of Science (PLoS)","issue":"6","license":[{"start":{"date-parts":[[2014,6,3]],"date-time":"2014-06-03T00:00:00Z","timestamp":1401753600000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS ONE"],"DOI":"10.1371\/journal.pone.0098678","type":"journal-article","created":{"date-parts":[[2014,6,3]],"date-time":"2014-06-03T20:31:31Z","timestamp":1401827491000},"page":"e98678","update-policy":"http:\/\/dx.doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":16,"title":["Molecular Organization of the 25S\u201318S rDNA IGS of Fagus sylvatica and Quercus suber: A Comparative Analysis"],"prefix":"10.1371","volume":"9","author":[{"given":"Vera","family":"In\u00e1cio","sequence":"first","affiliation":[]},{"given":"Margarida","family":"Rocheta","sequence":"additional","affiliation":[]},{"given":"Leonor","family":"Morais-Cec\u00edlio","sequence":"additional","affiliation":[]}],"member":"340","published-online":{"date-parts":[[2014,6,3]]},"reference":[{"key":"ref1","doi-asserted-by":"crossref","first-page":"225","DOI":"10.1186\/1471-2148-12-225","article-title":"Distribution of 45S rDNA sites in chromosomes of plants: structural and evolutionary implications","volume":"12","author":"F Roa","year":"2012","journal-title":"BMC Evol Biol"},{"key":"ref2","doi-asserted-by":"crossref","first-page":"219","DOI":"10.1146\/annurev.ecolsys.36.102003.152620","article-title":"The functional significance of ribosomal rDNA variation: Impacts on the evolutionary ecology of organisms","volume":"36","author":"LJ Weider","year":"2005","journal-title":"Annu Rev Ecol Evol Syst"},{"key":"ref3","doi-asserted-by":"crossref","first-page":"655","DOI":"10.1023\/A:1005856618898","article-title":"Structural analysis of rDNA in the genus <italic>Nicotiana<\/italic>","volume":"35","author":"NV Borisjuk","year":"1997","journal-title":"Plant Mol Biol"},{"key":"ref4","doi-asserted-by":"crossref","first-page":"439","DOI":"10.1007\/s11103-004-4678-x","article-title":"Organization, differential expression and methylation of rDNA in artificial <italic>Solanum<\/italic> allopolyploids","volume":"56","author":"NY Komarova","year":"2004","journal-title":"Plant Mol Biol"},{"key":"ref5","doi-asserted-by":"crossref","first-page":"181","DOI":"10.1016\/j.ygeno.2010.05.005","article-title":"Chromosomal conservation and sequence diversity of ribosomal RNA genes of two distant <italic>Oryza<\/italic> species","volume":"96","author":"KD Chang","year":"2010","journal-title":"Genomics"},{"key":"ref6","doi-asserted-by":"crossref","first-page":"144","DOI":"10.1007\/BF00166250","article-title":"Molecular evolution of the intergenic spacer in the nuclear ribosomal RNA genes of Cucurbitaceae","volume":"36","author":"K King","year":"1993","journal-title":"J Mol Evol"},{"key":"ref7","doi-asserted-by":"crossref","first-page":"7323","DOI":"10.1073\/pnas.77.12.7323","article-title":"Molecular evidence for genetic exchanges among ribosomal genes on nonhomologous chromosomes in man and apes","volume":"77","author":"N Arnheim","year":"1980","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref8","first-page":"207","article-title":"Nucleotide sequence, structural organization and length heterogeneity of ribosomal DNA intergenic spacer in <italic>Quercus petraea<\/italic> (Matt.) Liebl","volume":"281","author":"N Bauer","year":"2009","journal-title":"and"},{"key":"ref9","doi-asserted-by":"crossref","first-page":"460","DOI":"10.1007\/BF02337518","article-title":"Structural analysis of the rDNA intergenic spacer of <italic>Brassica nigra<\/italic>: evolutionary divergence of the spacers of the three diploid <italic>Brassica<\/italic> species","volume":"43","author":"S Bhatia","year":"1996","journal-title":"J Mol Evol"},{"key":"ref10","doi-asserted-by":"crossref","first-page":"243","DOI":"10.1093\/genetics\/149.1.243","article-title":"Multigene family of ribosomal DNA in <italic>Drosophila melanogaster<\/italic> reveals contrasting patterns of homogenization for IGS and ITS spacer regions: A possible mechanism to resolve this paradox","volume":"149","author":"C Polanco","year":"1998","journal-title":"Genetics"},{"key":"ref11","doi-asserted-by":"crossref","first-page":"465","DOI":"10.1007\/BF00019163","article-title":"Length heterogeneity of the rRNA precursor in cucumber (<italic>Cucumis sativus<\/italic>)","volume":"15","author":"U Zentgraf","year":"1990","journal-title":"Plant Mol Biol"},{"key":"ref12","doi-asserted-by":"crossref","first-page":"13","DOI":"10.1186\/1471-2156-12-13","article-title":"Evolution of the nuclear ribosomal DNA intergenic spacer in four species of the <italic>Daphnia pulex<\/italic> complex","volume":"12","author":"C Ambrose","year":"2011","journal-title":"BMC Genet"},{"key":"ref13","doi-asserted-by":"crossref","first-page":"1209","DOI":"10.1016\/0022-2836(91)90929-Z","article-title":"rDNA intergenic region from <italic>Arabidopsis thaliana<\/italic>. Structural analysis, intraspecific variation and functional implications","volume":"221","author":"P Gruendler","year":"1991","journal-title":"J Mol Biol"},{"key":"ref14","doi-asserted-by":"crossref","unstructured":"Kremer A, Casasoli M, Barreneche T, Bodenes C, Sisco P, et al. (2007) Fagaceae Trees. Genome Mapping and Molecular Breeding in Plants. pp. 161\u2013187.","DOI":"10.1007\/978-3-540-34541-1_5"},{"key":"ref15","doi-asserted-by":"crossref","first-page":"926","DOI":"10.1086\/600134","article-title":"Significance of pollen characteristics for infrageneric classification and phylogeny in <italic>Quercus<\/italic> (Fagaceae)","volume":"170","author":"T Denk","year":"2009","journal-title":"Int J Plant Sci"},{"key":"ref16","doi-asserted-by":"crossref","first-page":"213","DOI":"10.1007\/s006060200044","article-title":"The evolutionary history of <italic>Fagus<\/italic> in western Eurasia: Evidence from genes, morphology and the fossil record","volume":"232","author":"T Denk","year":"2002","journal-title":"Plant Syst Evol"},{"key":"ref17","doi-asserted-by":"crossref","first-page":"351","DOI":"10.1002\/tax.592002","article-title":"The oaks of western Eurasia: Traditional classifications and evidence from two nuclear markers","volume":"59","author":"T Denk","year":"2010","journal-title":"Taxon"},{"key":"ref18","doi-asserted-by":"crossref","first-page":"333","DOI":"10.1006\/mpev.1999.0614","article-title":"Phylogeny, biogeography, and processes of molecular differentiation in <italic>Quercus<\/italic> subgenus <italic>Quercus<\/italic> (Fagaceae)","volume":"12","author":"PS Manos","year":"1999","journal-title":"Mol Phylogenet Evol"},{"key":"ref19","doi-asserted-by":"crossref","first-page":"1361","DOI":"10.1086\/322949","article-title":"Systematics of Fagaceae: Phylogenetic tests of reproductive trait evolution","volume":"162","author":"PS Manos","year":"2001","journal-title":"Int J Plant Sci"},{"key":"ref20","doi-asserted-by":"crossref","first-page":"860","DOI":"10.1080\/106351501753462849","article-title":"Combining and comparing morphometric shape descriptors with a molecular phylogeny: the case of fruit type evolution in Bornean <italic>Lithocarpus<\/italic> (Fagaceae)","volume":"50","author":"CH Cannon","year":"2001","journal-title":"Syst Biol"},{"key":"ref21","doi-asserted-by":"crossref","first-page":"127","DOI":"10.1007\/BF00937803","article-title":"Ribosomal RNA genes in <italic>Quercus<\/italic> spp. (<italic>Fagaceae<\/italic>)","volume":"172","author":"R Bellarosa","year":"1990","journal-title":"Plant Syst Evol"},{"key":"ref22","doi-asserted-by":"crossref","first-page":"1113","DOI":"10.1007\/s11295-011-0399-x","article-title":"Evolution of rDNA FISH patterns in the Fagaceae","volume":"7","author":"T Ribeiro","year":"2011","journal-title":"Tree Genet Genomes"},{"key":"ref23","doi-asserted-by":"crossref","first-page":"5","DOI":"10.1515\/sg-2008-0002","article-title":"Chromosomal mapping of 18S-25S and 5S ribosomal genes on 15 species of Fagaceae from Northern Thailand","volume":"57","author":"P Chokchaichamnankit","year":"2008","journal-title":"Silvae Genet"},{"key":"ref24","doi-asserted-by":"crossref","first-page":"722","DOI":"10.1186\/1471-2164-13-722","article-title":"Next generation sequencing analysis reveals a relationship between rDNA unit diversity and locus number in <italic>Nicotiana<\/italic> diploids","volume":"13","author":"R Matyasek","year":"2012","journal-title":"BMC Genomics"},{"key":"ref25","doi-asserted-by":"crossref","first-page":"57","DOI":"10.1016\/0022-2836(72)90521-9","article-title":"A comparison of the ribosomal DNA&apos;s of <italic>Xenopus laevis<\/italic> and <italic>Xenopus mulleri<\/italic>: the evolution of tandem genes","volume":"63","author":"DD Brown","year":"1972","journal-title":"J Mol Biol"},{"key":"ref26","doi-asserted-by":"crossref","first-page":"2158","DOI":"10.1073\/pnas.77.4.2158","article-title":"Rapid duplication and loss of genes coding for the alpha chains of hemoglobin","volume":"77","author":"EA Zimmer","year":"1980","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref27","doi-asserted-by":"crossref","first-page":"1897","DOI":"10.1007\/s11033-009-9630-3","article-title":"Nuclear ribosomal spacer regions in plant phylogenetics: problems and prospects","volume":"37","author":"P Poczai","year":"2010","journal-title":"Mol Biol Rep"},{"key":"ref28","doi-asserted-by":"crossref","first-page":"614","DOI":"10.1038\/hdy.1993.186","article-title":"Variation and inheritance of ribosomal DNA in <italic>Pinus sylvestris<\/italic> L (Scots Pine)","volume":"71","author":"P Karvonen","year":"1993","journal-title":"Heredity"},{"key":"ref29","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1007\/BF00288563","article-title":"Distribution, inheritance and linkage relationships of ribosomal DNA spacer length variants in pea","volume":"72","author":"NO Polans","year":"1986","journal-title":"Theor Appl Genet"},{"key":"ref30","first-page":"112","article-title":"Three divergent rDNA clusters predate the species divergence in <italic>Quercus petraea<\/italic> (Matt.) Liebl","volume":"18","author":"G Muir","year":"2001","journal-title":"and"},{"key":"ref31","first-page":"13","article-title":"A rapid total DNA preparation procedure for fresh plant tissue","volume":"12","author":"JJ Doyle","year":"1990","journal-title":"Focus"},{"key":"ref32","doi-asserted-by":"crossref","first-page":"2947","DOI":"10.1093\/bioinformatics\/btm404","article-title":"Clustal W and Clustal X version 2.0","volume":"23","author":"MA Larkin","year":"2007","journal-title":"Bioinformatics"},{"key":"ref33","doi-asserted-by":"crossref","first-page":"W695","DOI":"10.1093\/nar\/gkq313","article-title":"A new bioinformatics analysis tools framework at EMBL-EBI","volume":"38","author":"M Goujon","year":"2010","journal-title":"Nucleic Acids Res"},{"key":"ref34","doi-asserted-by":"crossref","first-page":"460","DOI":"10.1093\/bioinformatics\/btg429","article-title":"Rapid and sensitive dot-matrix methods for genome analysis","volume":"20","author":"Y Huang","year":"2004","journal-title":"Bioinformatics"},{"key":"ref35","first-page":"28","article-title":"Fitting a mixture model by expectation maximization to discover motifs in biopolymers","volume":"2","author":"TL Bailey","year":"1994","journal-title":"Proc Int Conf Intell Syst Mol Biol"},{"key":"ref36","unstructured":"Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95\/98\/NT. pp. 95\u201398."},{"key":"ref37","doi-asserted-by":"crossref","first-page":"1166","DOI":"10.1093\/bioinformatics\/bts091","article-title":"Unipro UGENE: a unified bioinformatics toolkit","volume":"28","author":"K Okonechnikov","year":"2012","journal-title":"Bioinformatics"},{"key":"ref38","doi-asserted-by":"crossref","first-page":"39","DOI":"10.1145\/846183.846184","article-title":"Discovering matrix attachment regions (MARs) in genomic databases","volume":"1","author":"GB Singh","year":"2000","journal-title":"ACM SIGKDD Explorations Newsletter"},{"key":"ref39","doi-asserted-by":"crossref","first-page":"276","DOI":"10.1016\/S0168-9525(00)02024-2","article-title":"EMBOSS: The European molecular biology open software suite","volume":"16","author":"P Rice","year":"2000","journal-title":"Trends Genet"},{"key":"ref40","unstructured":"Schwarzacher T, Heslop-Harrison JS (2000) Practical in situ hybridization. Oxford: Bios Scientific Publishers Ltd."},{"key":"ref41","doi-asserted-by":"crossref","first-page":"1869","DOI":"10.1093\/nar\/7.7.1869","article-title":"Cloning and characterization of ribosomal RNA genes from wheat and barley","volume":"7","author":"WL Gerlach","year":"1979","journal-title":"Nucleic Acids Res"},{"key":"ref42","doi-asserted-by":"crossref","first-page":"1167","DOI":"10.1007\/BF00040697","article-title":"Pattern and degree of methylation in ribosomal RNA genes of <italic>Cucurbita pepo<\/italic> L","volume":"26","author":"RA Torres-Ruiz","year":"1994","journal-title":"Plant Mol Biol"},{"key":"ref43","doi-asserted-by":"crossref","first-page":"239","DOI":"10.1016\/0378-1119(89)90288-6","article-title":"The <italic>Cucurbita maxima<\/italic> ribosomal DNA intergenic spacer has a complex structure","volume":"80","author":"RJ Kelly","year":"1989","journal-title":"Gene"},{"key":"ref44","doi-asserted-by":"crossref","first-page":"723","DOI":"10.1139\/g88-120","article-title":"Complex organization of the length heterogeneous 5&apos; external spacer of mung bean (<italic>Vigna radiata<\/italic>) ribosomal DNA","volume":"30","author":"J Gerstner","year":"1988","journal-title":"Genome"},{"key":"ref45","doi-asserted-by":"crossref","first-page":"983","DOI":"10.1007\/BF00019395","article-title":"The structure of the large spacer region of the rDNA in <italic>Vicia faba<\/italic> and <italic>Pisum sativum<\/italic>","volume":"14","author":"A Kato","year":"1990","journal-title":"Plant Mol Biol"},{"key":"ref46","doi-asserted-by":"crossref","first-page":"7528","DOI":"10.1073\/pnas.90.16.7528","article-title":"Functional analysis of <italic>Arabidopsis thaliana<\/italic> rRNA gene and spacer promoters in vivo and by transient expression","volume":"90","author":"JH Doelling","year":"1993","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref47","doi-asserted-by":"crossref","first-page":"767","DOI":"10.1111\/j.1432-1033.1988.tb13956.x","article-title":"Structural and transcriptional characterization of the external spacer of a ribosomal RNA nuclear gene from a higher plant","volume":"172","author":"D Delcasso-Tremousaygue","year":"1988","journal-title":"Eur J Biochem"},{"key":"ref48","doi-asserted-by":"crossref","first-page":"1013","DOI":"10.1007\/BF00019222","article-title":"The <italic>Brassica oleracea<\/italic> rDNA spacer revisited","volume":"18","author":"D Tremousaygue","year":"1992","journal-title":"Plant Mol Biol"},{"key":"ref49","doi-asserted-by":"crossref","first-page":"550","DOI":"10.1111\/j.1432-1033.1995.tb20497.x","article-title":"Structure and comparative analysis of the rDNA intergenic spacer of <italic>Brassica rapa<\/italic>. Implications for the function and evolution of the Cruciferae spacer","volume":"229","author":"PS Da Rocha","year":"1995","journal-title":"Eur J Biochem"},{"key":"ref50","doi-asserted-by":"crossref","first-page":"381","DOI":"10.1007\/BF00019953","article-title":"Nucleotide sequence of the potato rDNA intergenic spacer","volume":"21","author":"N Borisjuk","year":"1993","journal-title":"Plant Mol Biol"},{"key":"ref51","doi-asserted-by":"crossref","first-page":"103","DOI":"10.1007\/BF00280374","article-title":"Transcription of tomato ribosomal DNA and the organization of the intergenic spacer","volume":"221","author":"KL Perry","year":"1990","journal-title":"Mol Gen Genet"},{"key":"ref52","doi-asserted-by":"crossref","first-page":"673","DOI":"10.1139\/g86-097","article-title":"The structure of DNA from the rye (<italic>Secale cereale<\/italic>) NOR R1 locus and its behavior in wheat backgrounds","volume":"28","author":"R Appels","year":"1986","journal-title":"Can J Genet Cytol"},{"key":"ref53","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1016\/0022-2836(88)90434-2","article-title":"Structure and evolution of the intergenic region in a ribosomal DNA repeat unit of wheat","volume":"201","author":"RF Barker","year":"1988","journal-title":"J Mol Biol"},{"key":"ref54","doi-asserted-by":"crossref","first-page":"4953","DOI":"10.1093\/nar\/14.12.4953","article-title":"The structure of the maize ribosomal DNA spacer region","volume":"14","author":"MD McMullen","year":"1986","journal-title":"Nucleic Acids Res"},{"key":"ref55","first-page":"434","article-title":"Molecular phylogenetics and cupule evolution in Fagaceae as inferred from nuclear <italic>CRABS CLAW<\/italic> sequences","volume":"57","author":"SH Oh","year":"2008","journal-title":"Taxon"},{"key":"ref56","doi-asserted-by":"crossref","first-page":"1579","DOI":"10.1093\/nar\/10.5.1579","article-title":"Digestion of highly modified bacteriophage DNA by restriction endonucleases","volume":"10","author":"LH Huang","year":"1982","journal-title":"Nucleic Acids Res"},{"key":"ref57","doi-asserted-by":"crossref","first-page":"969","DOI":"10.1007\/s001220051404","article-title":"Molecular cytogenetic studies of ribosomal genes and heterochromatin reveal conserved genome organization among 11 <italic>Quercus<\/italic> species","volume":"99","author":"V Zoldos","year":"1999","journal-title":"Theor Appl Genet"},{"key":"ref58","doi-asserted-by":"crossref","first-page":"89","DOI":"10.1007\/BF01087037","article-title":"25S-18S rDNA intergenic spacer of <italic>Nicotiana sylvestris<\/italic> (Solanaceae): primary and secondary structure analysis","volume":"218","author":"RA Volkov","year":"1999","journal-title":"Plant Syst Evol"},{"key":"ref59","doi-asserted-by":"crossref","first-page":"261","DOI":"10.1017\/S1477200007002447","article-title":"Ribosomal DNA in plant hybrids: inheritance, rearrangement, expression","volume":"5","author":"RA Volkov","year":"2007","journal-title":"Syst Biodivers"},{"key":"ref60","doi-asserted-by":"crossref","first-page":"615","DOI":"10.1051\/forest:19990709","article-title":"Evaluation of the nuclear DNA content and GC percent in four varieties of <italic>Fagus sylvatica<\/italic> L","volume":"56","author":"A Gallois","year":"1999","journal-title":"Ann For Sci"},{"key":"ref61","doi-asserted-by":"crossref","first-page":"162","DOI":"10.1139\/gen-41-2-162","article-title":"Genome size and base composition of seven <italic>Quercus<\/italic> species: inter- and intra-population variation","volume":"41","author":"V Zoldos","year":"1998","journal-title":"Genome"},{"key":"ref62","doi-asserted-by":"crossref","first-page":"1029","DOI":"10.1590\/S1415-47572000000400049","article-title":"Patterns of heterochromatin distribution in plant chromosomes","volume":"23","author":"M Guerra","year":"2000","journal-title":"Genet Mol Biol"},{"key":"ref63","doi-asserted-by":"crossref","first-page":"170","DOI":"10.1007\/BF02099943","article-title":"GC balance in the internal transcribed spacers ITS 1 and ITS 2 of nuclear ribosomal RNA genes","volume":"30","author":"RA Torres","year":"1990","journal-title":"J Mol Evol"},{"key":"ref64","doi-asserted-by":"crossref","first-page":"355","DOI":"10.1016\/j.ympev.2004.10.014","article-title":"Utility of ITS sequence data for phylogenetic reconstruction of Italian <italic>Quercus<\/italic> spp","volume":"34","author":"R Bellarosa","year":"2005","journal-title":"Mol Phylogenet Evol"},{"key":"ref65","doi-asserted-by":"crossref","first-page":"53","DOI":"10.1023\/A:1011999730828","article-title":"A common feature shared by bent DNA structures locating in the eukaryotic promoter region","volume":"28","author":"M Miyano","year":"2001","journal-title":"Mol Biol Rep"},{"key":"ref66","doi-asserted-by":"crossref","first-page":"7093","DOI":"10.1016\/S0021-9258(19)39080-5","article-title":"Intrinsically bent DNA","volume":"265","author":"DM Crothers","year":"1990","journal-title":"J Biol Chem"},{"key":"ref67","doi-asserted-by":"crossref","first-page":"1282","DOI":"10.1074\/jbc.270.3.1282","article-title":"Intrinsically bent DNA in a eukaryotic transcription factor recognition sequence potentiates transcription activation","volume":"270","author":"J Kim","year":"1995","journal-title":"J Biol Chem"},{"key":"ref68","doi-asserted-by":"crossref","first-page":"1223","DOI":"10.4161\/cc.5.11.2814","article-title":"Multiple initiation sites within the human ribosomal RNA gene","volume":"5","author":"FD Coffman","year":"2006","journal-title":"Cell Cycle"},{"key":"ref69","doi-asserted-by":"crossref","first-page":"1119","DOI":"10.1093\/aob\/mcr075","article-title":"Initiation of DNA replication: functional and evolutionary aspects","volume":"107","author":"JA Bryant","year":"2011","journal-title":"Ann Bot"},{"key":"ref70","doi-asserted-by":"crossref","first-page":"320","DOI":"10.1006\/geno.1995.1049","article-title":"Complete sequence of the 43-kb human ribosomal DNA repeat: analysis of the intergenic spacer","volume":"27","author":"IL Gonzalez","year":"1995","journal-title":"Genomics"},{"key":"ref71","doi-asserted-by":"crossref","first-page":"e168","DOI":"10.1371\/journal.pgen.0020168","article-title":"Forces shaping the fastest evolving regions in the human genome","volume":"2","author":"KS Pollard","year":"2006","journal-title":"PLoS Genet"},{"key":"ref72","doi-asserted-by":"crossref","unstructured":"\u0160marda P, Bure\u0161 P (2012) The variation of base composition in plant genomes. Plant Genome Diversity Volume 1: Springer. pp. 209\u2013235.","DOI":"10.1007\/978-3-7091-1130-7_14"},{"key":"ref73","doi-asserted-by":"crossref","first-page":"407","DOI":"10.1038\/nature05915","article-title":"The complex language of chromatin regulation during transcription","volume":"447","author":"SL Berger","year":"2007","journal-title":"Nature"},{"key":"ref74","doi-asserted-by":"crossref","first-page":"641","DOI":"10.1038\/nrm1171","article-title":"Epigenetic silencing of RNA polymerase I transcription","volume":"4","author":"I Grummt","year":"2003","journal-title":"Nat Rev Mol Cell Biol"},{"key":"ref75","doi-asserted-by":"crossref","first-page":"529","DOI":"10.1007\/BF00222984","article-title":"rRNA gene activity and control of expression mediated by methylation and imprinting during embryo development in wheat x rye hybrids","volume":"91","author":"N Neves","year":"1995","journal-title":"Theor Appl Genet"},{"key":"ref76","doi-asserted-by":"crossref","first-page":"707","DOI":"10.1139\/g90-106","article-title":"1R chromosome nucleolus organizer region activation by 5-azacytidine in wheat x rye hybrids","volume":"33","author":"R Vieira","year":"1990","journal-title":"Genome"},{"key":"ref77","doi-asserted-by":"crossref","first-page":"464","DOI":"10.1073\/pnas.91.2.464","article-title":"Ribosomal gene promoter domains can function as artificial enhancers of RNA polymerase I transcription, supporting a promoter origin for natural enhancers in <italic>Xenopus<\/italic>","volume":"91","author":"CS Pikaard","year":"1994","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref78","doi-asserted-by":"crossref","first-page":"7527","DOI":"10.1073\/pnas.87.19.7527","article-title":"A 140-base-pair repetitive sequence element in the mouse rRNA gene spacer enhances transcription by RNA polymerase I in a cell-free system","volume":"87","author":"A Kuhn","year":"1990","journal-title":"Proc Natl Acad Sci U S A"},{"key":"ref79","doi-asserted-by":"crossref","first-page":"285","DOI":"10.1016\/0092-8674(84)90324-6","article-title":"Enhancer-like properties of the 60\/81 bp elements in the ribosomal gene spacer of <italic>Xenopus laevis<\/italic>","volume":"37","author":"P Labhart","year":"1984","journal-title":"Cell"},{"key":"ref80","doi-asserted-by":"crossref","first-page":"233","DOI":"10.1093\/oxfordjournals.pcp.a028937","article-title":"Structural and functional characterization of the intergenic spacer region of the rDNA in <italic>Daucus carota<\/italic>","volume":"37","author":"A Suzuki","year":"1996","journal-title":"Plant Cell Physiol"},{"key":"ref81","doi-asserted-by":"crossref","first-page":"175","DOI":"10.1007\/BF00018476","article-title":"The nucleotide sequence of the rDNA intergenic spacer region in a wild-species of the genus <italic>Vicia<\/italic>, <italic>V. angustifolia<\/italic>","volume":"18","author":"M Ueki","year":"1992","journal-title":"Plant Mol Biol"},{"key":"ref82","doi-asserted-by":"crossref","first-page":"23","DOI":"10.1038\/hdy.2013.11","article-title":"Dancing together and separate again: gymnosperms exhibit frequent changes of fundamental 5S and 35S rRNA gene (rDNA) organisation","volume":"111","author":"S Garcia","year":"2013","journal-title":"Heredity"},{"key":"ref83","doi-asserted-by":"crossref","first-page":"293","DOI":"10.1007\/s11295-007-0109-x","article-title":"The intergenic spacer region of the rDNA in <italic>Olea europaea<\/italic> L","volume":"4","author":"F Maggini","year":"2008","journal-title":"Tree Genet Genomes"},{"key":"ref84","unstructured":"Parvaresh M, Talebi M, Sayed-Tabatabaei B-E (2013) Molecular characterization of ribosomal DNA intergenic spacer (IGS) region in pomegranate (<italic>Punica granatum<\/italic> L.). Plant Syst Evol: 1\u201310."},{"key":"ref85","doi-asserted-by":"crossref","first-page":"369","DOI":"10.1007\/BF00182184","article-title":"Fine structure and evolution of the rDNA intergenic spacer in rice and other cereals","volume":"36","author":"F Cordesse","year":"1993","journal-title":"J Mol Evol"},{"key":"ref86","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1016\/S0079-6603(08)60810-7","article-title":"Promotion and regulation of ribosomal transcription in eukaryotes by RNA polymerase","volume":"50","author":"T Moss","year":"1995","journal-title":"Prog Nucleic Acid Res Mol Biol"},{"key":"ref87","doi-asserted-by":"crossref","first-page":"945","DOI":"10.1101\/gad.182865.111","article-title":"Histone methyltransferases regulating rRNA gene dose and dosage control in <italic>Arabidopsis<\/italic>","volume":"26","author":"Fdr Pontvianne","year":"2012","journal-title":"Genes Dev"},{"key":"ref88","doi-asserted-by":"crossref","unstructured":"Bierhoff H, Postepska-Igielska A, Grummt I (2013) Noisy silence: Non-coding RNA and heterochromatin formation at repetitive elements. Epigenetics9(1).","DOI":"10.4161\/epi.26485"},{"key":"ref89","doi-asserted-by":"crossref","unstructured":"Preuss SB, Costa-Nunes P, Tucker S, Pontes O, Lawrence RJ, et al. (2008) Multimegabase silencing in nucleolar dominance involves siRNA-Directed DNA methylation and specific methylcytosine-binding proteins. Cell Press. pp. 673\u2013684.","DOI":"10.1016\/j.molcel.2008.11.009"},{"key":"ref90","doi-asserted-by":"crossref","first-page":"52","DOI":"10.1038\/embor.2009.254","article-title":"Intergenic transcripts originating from a subclass of ribosomal DNA repeats silence ribosomal RNA genes in trans","volume":"11","author":"R Santoro","year":"2010","journal-title":"EMBO Rep"},{"key":"ref91","doi-asserted-by":"crossref","first-page":"9577","DOI":"10.1093\/nar\/15.22.9577","article-title":"The enhancement of ribosomal transcription by the recycling of RNA polymerase I","volume":"15","author":"K Mitchelson","year":"1987","journal-title":"Nucleic Acids Res"},{"key":"ref92","doi-asserted-by":"crossref","first-page":"1283","DOI":"10.1016\/j.cell.2006.04.042","article-title":"The pattern of gene amplification is determined by the chromosomal location of hairpin-capped breaks","volume":"125","author":"V Narayanan","year":"2006","journal-title":"Cell"},{"key":"ref93","doi-asserted-by":"crossref","first-page":"215","DOI":"10.1038\/nrc2591","article-title":"Palindromic gene amplification - an evolutionarily conserved role for DNA inverted repeats in the genome","volume":"9","author":"H Tanaka","year":"2009","journal-title":"Nat Rev Cancer"},{"key":"ref94","doi-asserted-by":"crossref","first-page":"275","DOI":"10.1098\/rstb.1986.0007","article-title":"Conservation and divergence in multigene families: alternatives to selection and drift","volume":"312","author":"GA Dover","year":"1986","journal-title":"Philos Trans R Soc Lond B Biol Sci"},{"key":"ref95","doi-asserted-by":"crossref","first-page":"59","DOI":"10.1007\/s00606-008-0091-2","article-title":"Molecular evolution of 35S rDNA and taxonomic status of <italic>Lycopersicon<\/italic> within <italic>Solanum<\/italic> sect. <italic>Petota<\/italic>","volume":"276","author":"NY Komarova","year":"2008","journal-title":"Plant Syst Evol"},{"key":"ref96","doi-asserted-by":"crossref","first-page":"1935","DOI":"10.1534\/genetics.166.4.1935","article-title":"Dynamic changes in the distribution of a satellite homologous to intergenic 26-18S rDNA spacer in the evolution of <italic>Nicotiana<\/italic>","volume":"166","author":"KY Lim","year":"2004","journal-title":"Genetics"},{"key":"ref97","doi-asserted-by":"crossref","first-page":"74","DOI":"10.1007\/BF00286487","article-title":"The organization and genetics of rDNA length variants in peas","volume":"91","author":"THN Ellis","year":"1984","journal-title":"Chromosoma"},{"key":"ref98","doi-asserted-by":"crossref","first-page":"285","DOI":"10.1093\/genetics\/117.2.285","article-title":"Heritability and variability in ribosomal RNA genes of <italic>Vicia faba<\/italic>","volume":"117","author":"SO Rogers","year":"1987","journal-title":"Genetics"},{"key":"ref99","doi-asserted-by":"crossref","first-page":"79","DOI":"10.1126\/science.1068037","article-title":"A draft sequence of the rice genome (<italic>Oryza sativa<\/italic> L. ssp. <italic>indica<\/italic>)","volume":"296","author":"J Yu","year":"2002","journal-title":"Science"},{"key":"ref100","doi-asserted-by":"crossref","first-page":"735","DOI":"10.2307\/2656583","article-title":"Physical mapping of ribosomal RNA genes in peonies (<italic>Paeonia<\/italic>, Paeoniaceae) by fluorescent in situ hybridization: implications for phylogeny and concerted evolution","volume":"86","author":"D Zhang","year":"1999","journal-title":"Am J Bot"},{"key":"ref101","doi-asserted-by":"crossref","first-page":"924","DOI":"10.1007\/s00122-005-0196-8","article-title":"Extensive ribosomal DNA amplification during Andean common bean (<italic>Phaseolus vulgaris<\/italic> L.) evolution","volume":"112","author":"A Pedrosa-Harand","year":"2006","journal-title":"Theor Appl Genet"},{"key":"ref102","doi-asserted-by":"crossref","first-page":"1073","DOI":"10.1007\/BF00047710","article-title":"Ribosomal RNA genes of <italic>Phaseolus coccineus<\/italic>","volume":"18","author":"F Maggini","year":"1992","journal-title":"I. Plant Mol Biol"},{"key":"ref103","doi-asserted-by":"crossref","first-page":"302","DOI":"10.1007\/BF00331282","article-title":"Termination of transcription of ribosomal RNA genes of mung bean occurs within a 175 bp repetitive element of the spacer region","volume":"218","author":"K Schiebel","year":"1989","journal-title":"Mol Gen Genet"},{"key":"ref104","doi-asserted-by":"crossref","first-page":"293","DOI":"10.1007\/BF00327389","article-title":"Molecular and chromosomal organization of DNAs sequences coding for the ribosomal RNAs in cereals","volume":"78","author":"R Appels","year":"1980","journal-title":"Chromosoma"},{"key":"ref105","doi-asserted-by":"crossref","first-page":"163","DOI":"10.1007\/BF01276890","article-title":"Sequence heterogeneity of the ribosomal DNA in <italic>Allium cepa<\/italic> (Liliaceae)","volume":"108","author":"F Maggini","year":"1981","journal-title":"Protoplasma"},{"key":"ref106","doi-asserted-by":"crossref","first-page":"76","DOI":"10.1007\/BF01275793","article-title":"Ribosomal RNA genes in species of the <italic>Cynareae<\/italic> Tribe (<italic>Compositae<\/italic>)","volume":"132","author":"GF Tucci","year":"1986","journal-title":"I. Protoplasma"},{"key":"ref107","doi-asserted-by":"crossref","unstructured":"Woo HR, Richards EJ (2008) Natural variation in DNA methylation in ribosomal RNA genes of <italic>Arabidopsis thaliana<\/italic>. BMC Plant Biol 8.","DOI":"10.1186\/1471-2229-8-92"}],"container-title":["PLoS ONE"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pone.0098678","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,4,5]],"date-time":"2022-04-05T21:12:26Z","timestamp":1649193146000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0098678"}},"subtitle":[],"editor":[{"given":"Giovanni G.","family":"Vendramin","sequence":"first","affiliation":[]}],"short-title":[],"issued":{"date-parts":[[2014,6,3]]},"references-count":107,"journal-issue":{"issue":"6","published-online":{"date-parts":[[2014,6,3]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pone.0098678","relation":{},"ISSN":["1932-6203"],"issn-type":[{"value":"1932-6203","type":"electronic"}],"subject":[],"published":{"date-parts":[[2014,6,3]]}}}