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| Fältnamn | Indikatorer | Metadata |
|---|---|---|
| 000 | 07076naa a2200985 4500 | |
| 001 | oai:research.chalmers.se:538bef5a-e425-4ed1-ab8a-24dc2d322a33 | |
| 003 | SwePub | |
| 008 | 171007s2011 | |||||||||||000 ||eng| | |
| 024 | 7 | a https://research.chalmers.se/publication/1636772 URI |
| 024 | 7 | a https://doi.org/10.1101/gr.112169.1102 DOI |
| 040 | a (SwePub)cth | |
| 041 | a engb eng | |
| 042 | 9 SwePub | |
| 072 | 7 | a art2 swepub-publicationtype |
| 072 | 7 | a ref2 swepub-contenttype |
| 100 | 1 | a Andersen, M. R.u Danmarks Tekniske Universitet,Technical University of Denmark4 aut |
| 245 | 1 0 | a Comparative genomics of citric-acid-producing Aspergillus niger ATCC 1015 versus enzyme-producing CBS 513.88 |
| 264 | c 2011-05-04 | |
| 264 | 1 | b Cold Spring Harbor Laboratory,c 2011 |
| 338 | a electronic2 rdacarrier | |
| 520 | a The filamentous fungus Aspergillus niger exhibits great diversity in its phenotype. It is found globally, both as marine and terrestrial strains, produces both organic acids and hydrolytic enzymes in high amounts, and some isolates exhibit pathogenicity. Although the genome of an industrial enzyme-producing A. niger strain (CBS 513.88) has already been sequenced, the versatility and diversity of this species compel additional exploration. We therefore undertook wholegenome sequencing of the acidogenic A. niger wild-type strain (ATCC 1015) and produced a genome sequence of very high quality. Only 15 gaps are present in the sequence, and half the telomeric regions have been elucidated. Moreover, sequence information from ATCC 1015 was used to improve the genome sequence of CBS 513.88. Chromosome-level comparisons uncovered several genome rearrangements, deletions, a clear case of strain-specific horizontal gene transfer, and identification of 0.8 Mb of novel sequence. Single nucleotide polymorphisms per kilobase (SNPs/kb) between the two strains were found to be exceptionally high (average: 7.8, maximum: 160 SNPs/kb). High variation within the species was confirmed with exo-metabolite profiling and phylogenetics. Detailed lists of alleles were generated, and genotypic differences were observed to accumulate in metabolic pathways essential to acid production and protein synthesis. A transcriptome analysis supported up-regulation of genes associated with biosynthesis of amino acids that are abundant in glucoamylase A, tRNA-synthases, and protein transporters in the protein producing CBS 513.88 strain. Our results and data sets from this integrative systems biology analysis resulted in a snapshot of fungal evolution and will support further optimization of cell factories based on filamentous fungi | |
| 650 | 7 | a NATURVETENSKAPx Biologix Genetik0 (SwePub)106092 hsv//swe |
| 650 | 7 | a NATURAL SCIENCESx Biological Sciencesx Genetics0 (SwePub)106092 hsv//eng |
| 653 | a Gene Rearrangement | |
| 653 | a Gene Transfer | |
| 653 | a Gene Expression Profiling | |
| 653 | a Base Sequence | |
| 653 | a Evolution | |
| 653 | a Molecular | |
| 653 | a Genome | |
| 653 | a Horizontal | |
| 653 | a Computational Biology | |
| 653 | a Genetic Variation | |
| 700 | 1 | a Salazar Pena, Margarita,d 1979u Danmarks Tekniske Universitet,Technical University of Denmark,Chalmers tekniska högskola,Chalmers University of Technology4 aut0 (Swepub:cth)penam |
| 700 | 1 | a Schaap, P. J.u Wageningen University and Research4 aut |
| 700 | 1 | a Van De Vondervoort, P. J. I.u DSM Biotechnology Centre4 aut |
| 700 | 1 | a Culley, D.u Pacific Northwest National Laboratory4 aut |
| 700 | 1 | a Thykaer, J.u Danmarks Tekniske Universitet,Technical University of Denmark4 aut |
| 700 | 1 | a Frisvad, J. C.u Danmarks Tekniske Universitet,Technical University of Denmark4 aut |
| 700 | 1 | a Nielsen, K. F.u Danmarks Tekniske Universitet,Technical University of Denmark4 aut |
| 700 | 1 | a Albang, R.u Biomax Informatics AG4 aut |
| 700 | 1 | a Albermann, K.u Biomax Informatics AG4 aut |
| 700 | 1 | a Berka, R. M.u Novozymes, Inc.4 aut |
| 700 | 1 | a Braus, G. H.u Georg-August-Universität Göttingen,University of Göttingen4 aut |
| 700 | 1 | a Braus-Stromeyer, S. A.u Georg-August-Universität Göttingen,University of Göttingen4 aut |
| 700 | 1 | a Corrochano, L. M.u Universidad de Sevilla,University of Seville4 aut |
| 700 | 1 | a Dai, Z.u Pacific Northwest National Laboratory4 aut |
| 700 | 1 | a Van Dijck, P. W. M.u DSM Nutritional Products Ltd4 aut |
| 700 | 1 | a Hofmann, G.u Novozymes A/S4 aut |
| 700 | 1 | a Lasure, L. L.u Pacific Northwest National Laboratory4 aut |
| 700 | 1 | a Magnuson, J. K.u Pacific Northwest National Laboratory4 aut |
| 700 | 1 | a Menke, H.u DSM Biotechnology Centre4 aut |
| 700 | 1 | a Meijer, M.4 aut |
| 700 | 1 | a Meijer, S. L.u Danmarks Tekniske Universitet,Technical University of Denmark4 aut |
| 700 | 1 | a Nielsen, J. B.u Danmarks Tekniske Universitet,Technical University of Denmark4 aut |
| 700 | 1 | a Nielsen, M. L.u Danmarks Tekniske Universitet,Technical University of Denmark4 aut |
| 700 | 1 | a Van Ooyen, A. J. J.u DSM Biotechnology Centre4 aut |
| 700 | 1 | a Pel, H. J.u DSM Biotechnology Centre4 aut |
| 700 | 1 | a Poulsen, L.u Danmarks Tekniske Universitet,Technical University of Denmark4 aut |
| 700 | 1 | a Samson, R. A.4 aut |
| 700 | 1 | a Stam, H.u DSM Biotechnology Centre4 aut |
| 700 | 1 | a Tsang, A.u Université Concordia,Concordia University4 aut |
| 700 | 1 | a Van Den Brink, J. M.u Chr. Hansen Holding A/S4 aut |
| 700 | 1 | a Atkins, A.u DOE Joint Genome Institute4 aut |
| 700 | 1 | a Aerts, A.u DOE Joint Genome Institute4 aut |
| 700 | 1 | a Shapiro, H.u DOE Joint Genome Institute4 aut |
| 700 | 1 | a Pangilinan, J.u DOE Joint Genome Institute4 aut |
| 700 | 1 | a Salamov, A.u DOE Joint Genome Institute4 aut |
| 700 | 1 | a Lou, Y.u DOE Joint Genome Institute4 aut |
| 700 | 1 | a Lindquist, E.u DOE Joint Genome Institute4 aut |
| 700 | 1 | a Lucas, S.u DOE Joint Genome Institute4 aut |
| 700 | 1 | a Grimwood, J.u Stanford University4 aut |
| 700 | 1 | a Grigoriev, I. V.u DOE Joint Genome Institute4 aut |
| 700 | 1 | a Kubicek, C. P.u Technische Universität Wien,Vienna University of Technology4 aut |
| 700 | 1 | a Martinez, D.u Los Alamos National Laboratory,University of New Mexico4 aut |
| 700 | 1 | a Van Peij, N. N. M. E.u DSM Biotechnology Centre4 aut |
| 700 | 1 | a Roubos, J. A.u DSM Biotechnology Centre4 aut |
| 700 | 1 | a Nielsen, Jens B,d 1962u Chalmers tekniska högskola,Chalmers University of Technology4 aut0 (Swepub:cth)nielsenj |
| 700 | 1 | a Baker, S. E.u Pacific Northwest National Laboratory4 aut |
| 710 | 2 | a Danmarks Tekniske Universitetb Chalmers tekniska högskola4 org |
| 773 | 0 | t Genome Researchd : Cold Spring Harbor Laboratoryg 21:6, s. 885-897q 21:6<885-897x 1088-9051x 1549-5469 |
| 856 | 4 | u http://publications.lib.chalmers.se/records/fulltext/local_163677.pdfx primaryx freey FULLTEXT |
| 856 | 4 | u http://genome.cshlp.org/content/21/6/885.full.pdf |
| 856 | 4 8 | u https://research.chalmers.se/publication/163677 |
| 856 | 4 8 | u https://doi.org/10.1101/gr.112169.110 |
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