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Sökning: onr:"swepub:oai:DiVA.org:uu-264039" > Comparative genomic...

LIBRIS Formathandbok  (Information om MARC21)
FältnamnIndikatorerMetadata
00005710naa a2200457 4500
001oai:DiVA.org:uu-264039
003SwePub
008151005s2015 | |||||||||||000 ||eng|
009oai:prod.swepub.kib.ki.se:131951136
0247 a https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-2640392 URI
0247 a https://doi.org/10.1186/s12864-015-1893-62 DOI
0247 a http://kipublications.ki.se/Default.aspx?queryparsed=id:1319511362 URI
040 a (SwePub)uud (SwePub)ki
041 a engb eng
042 9 SwePub
072 7a ref2 swepub-contenttype
072 7a art2 swepub-publicationtype
1001 a Ankarklev, Johanu Uppsala universitet,Institutionen för cell- och molekylärbiologi,Science for Life Laboratory, SciLifeLab4 aut0 (Swepub:uu)joank425
2451 0a Comparative genomic analyses of freshly isolated Giardia intestinalis assemblage A isolates
264 c 2015-09-15
264 1b Springer Science and Business Media LLC,c 2015
338 a electronic2 rdacarrier
520 a Background: The diarrhea-causing protozoan Giardia intestinalis makes up a species complex of eight different assemblages (A-H), where assemblage A and B infect humans. Comparative whole-genome analyses of three of these assemblages have shown that there is significant divergence at the inter-assemblage level, however little is currently known regarding variation at the intra-assemblage level. We have performed whole genome sequencing of two sub-assemblage AII isolates, recently axenized from symptomatic human patients, to study the biological and genetic diversity within assemblage A isolates. Results: Several biological differences between the new and earlier characterized assemblage A isolates were identified, including a difference in growth medium preference. The two AII isolates were of different sub-assemblage types (AII-1 [AS175] and AII-2 [AS98]) and showed size differences in the smallest chromosomes. The amount of genetic diversity was characterized in relation to the genome of the Giardia reference isolate WB, an assemblage AI isolate. Our analyses indicate that the divergence between AI and AII is approximately 1 %, represented by similar to 100,000 single nucleotide polymorphisms (SNP) distributed over the chromosomes with enrichment in variable genomic regions containing surface antigens. The level of allelic sequence heterozygosity (ASH) in the two AII isolates was found to be 0.25-0.35 %, which is 25-30 fold higher than in the WB isolate and 10 fold higher than the assemblage AII isolate DH (0.037 %). 35 protein-encoding genes, not found in the WB genome, were identified in the two AII genomes. The large gene families of variant-specific surface proteins (VSPs) and high cysteine membrane proteins (HCMPs) showed isolate-specific divergences of the gene repertoires. Certain genes, often in small gene families with 2 to 8 members, localize to the variable regions of the genomes and show high sequence diversity between the assemblage A isolates. One of the families, Bactericidal/ Permeability Increasing-like protein (BPIL), with eight members was characterized further and the proteins were shown to localize to the ER in trophozoites. Conclusions: Giardia genomes are modular with highly conserved core regions mixed up by variable regions containing high levels of ASH, SNPs and variable surface antigens. There are significant genomic variations in assemblage A isolates, in terms of chromosome size, gene content, surface protein repertoire and gene polymorphisms and these differences mainly localize to the variable regions of the genomes. The large genetic differences within one assemblage of G. intestinalis strengthen the argument that the assemblages represent different Giardia species.
650 7a NATURVETENSKAPx Biologix Genetik0 (SwePub)106092 hsv//swe
650 7a NATURAL SCIENCESx Biological Sciencesx Genetics0 (SwePub)106092 hsv//eng
650 7a NATURVETENSKAPx Biologix Mikrobiologi0 (SwePub)106062 hsv//swe
650 7a NATURAL SCIENCESx Biological Sciencesx Microbiology0 (SwePub)106062 hsv//eng
7001 a Franzen, Oscaru Karolinska Institutet,Karolinska Inst, Dept Cell & Mol Biol, SE-17177 Stockholm, Sweden. KISP, Sci Life Lab, S-17165 Solna, Sweden.4 aut
7001 a Peirasmaki, Dimitrau Uppsala universitet,Mikrobiologi,Science for Life Laboratory, SciLifeLab4 aut0 (Swepub:uu)dimpe224
7001 a Jerlstrom-Hultqvist, Jonu Uppsala universitet,Institutionen för cell- och molekylärbiologi,Science for Life Laboratory, SciLifeLab4 aut0 (Swepub:uu)jonje219
7001 a Lebbad, Marianneu Publ Hlth Agcy Sweden, Dept Microbiol, SE-17182 Solna, Sweden.4 aut
7001 a Andersson, Janu Uppsala universitet,Molekylär evolution,Science for Life Laboratory, SciLifeLab4 aut0 (Swepub:uu)janander
7001 a Andersson, Bjornu Karolinska Institutet,Karolinska Inst, Dept Cell & Mol Biol, SE-17177 Stockholm, Sweden.;KISP, Sci Life Lab, S-17165 Solna, Sweden.4 aut
7001 a Svärd, Staffan G.u Uppsala universitet,Mikrobiologi,Science for Life Laboratory, SciLifeLab4 aut0 (Swepub:uu)stsva021
7102 a Uppsala universitetb Institutionen för cell- och molekylärbiologi4 org
7730 t BMC Genomicsd : Springer Science and Business Media LLCg 16q 16x 1471-2164
8564 u https://uu.diva-portal.org/smash/get/diva2:859235/FULLTEXT01.pdfx primaryx Raw objecty fulltext:print
8564 u https://bmcgenomics.biomedcentral.com/track/pdf/10.1186/s12864-015-1893-6
8564 8u https://urn.kb.se/resolve?urn=urn:nbn:se:uu:diva-264039
8564 8u https://doi.org/10.1186/s12864-015-1893-6
8564 8u http://kipublications.ki.se/Default.aspx?queryparsed=id:131951136

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