Personal Homepage of Dr. Karina Brinkrolf

2024

Hofmann N., Bartkuhn M., Becker S., Biedenkopf N., Böttcher-Friebertshäuser E., Brinkrolf K., Dietzel E., Fehling SK., (2024). Distinct negative-sense RNA viruses induce a common set of transcripts encoding proteins forming an extensive network. Journal of Virology. Volume 98(10), DOI: 10.1128/jvi.00935-24 

Blumenkamp, P., Pfister, M., Diedrich, S., Brinkrolf K., Jaenicke S., Goesmann A., (2024). Curare and GenExVis: a versatile toolkit for analyzing and visualizing RNA-Seq data. BMC Bioinformatics 25, 138. DOI: 10.1186/s12859-024-05761-2

2022

Hurka, S., Brinkrolf, K., Özbek, R., Förster, F., Billion, A., Heep, J., Timm, T., Lochnit, G., Vilcinskas, A., Lüddecke, T.. (2022). Venomics of the Central European Myrmicine Ants Myrmica rubra and Myrmica ruginodis. MDPI.Volume 14(5), 358. DOI: 10.3390/toxins14050358

Hurka, S., Lüddecke, T., Paas, A., Dersch, L., Schulte, L., Eichberg, J., Hardes, K., Brinkrolf, K., Vilcinskas, A.. (2022). Bioactivity Profiling of In Silico Predicted Linear Toxins from the Ants Myrmica rubra and Myrmica ruginodis. Multidisciplinary Digital Publishing Institute.Volume 14(12), 846. DOI: 10.3390/toxins14120846

2021

Brinkrolf, K., Shukla, S., Griep, S., Rupp, O., Heise, P., Goesmann, A., Heckel, D., Vogel, H., Vilcinskas, A.. (2021). Genomic analysis of novel Yarrowia-like yeast symbionts associated with the carrion-feeding burying beetle Nicrophorus vespilloides. Springer.Volume 22(1), 323. DOI: https://doi.org/10.1186/s12864-021-07597-z

Tegtmeier, D., Hurka, S., Klüber, P., Brinkrolf, K., Heise, P., Vilcinskas, A.. (2021). Cottonseed press cake as a potential diet for industrially farmed black soldier fly larvae triggers adaptations of their bacterial and fungal gut microbiota. Frontiers Media SA.Volume 12, 634503. DOI: 10.3389/fmicb.2021.634503

Schwabe, M., Griep, S., Schmidtberg, H., Plarre, R., Goesmann, A., Vilcinskas, A., Vogel, H., Brinkrolf, K.. (2021). Next-Generation Sequencing Analysis of the Tineola bisselliella Larval Gut Transcriptome Reveals Candidate Enzymes for Keratin Digestion. MDPI.Volume 12(8), 1113. DOI: 10.3390/genes12081113

Casas-Pastor, D., Müller, R., Jaenicke, S., Brinkrolf, K., Becker, A., Buttner, M., Gross, C., Mascher, T., Goesmann, A., Fritz, G.. (2021). Expansion and re-classification of the extracytoplasmic function (ECF) $\sigma$ factor family. Oxford University Press.Volume 49(2), 986--1005. DOI: 10.1093/nar/gkaa1229

2020

Vilcinskas, A., Schwabe, M., Brinkrolf, K., Plarre, R., Wielsch, N., Vogel, H.. (2020). Larvae of the clothing moth Tineola bisselliella maintain gut bacteria that secrete enzyme cocktails to facilitate the digestion of keratin. MDPI.Volume 8(9), 1415. DOI: 10.3390/microorganisms8091415

2018

Rupp, O., MacDonald, M., Li, S., Dhiman, H., Polson, S., Griep, S., Heffner, K., Hernandez, I., Brinkrolf, K., Jadhav, V., others. (2018). A reference genome of the Chinese hamster based on a hybrid assembly strategy. Wiley Online Library.Volume 115(8), 2087--2100. DOI: 10.1002/bit.26722

2017

Brinkrolf, K., Heise, P., Griep, S.. (2017). Genome Analyses of Insect-associated Microbes. Volume 72(9-10), E3--E3.

Wippermann, A., Rupp, O., Brinkrolf, K., Hoffrogge, R., Noll, T.. (2017). Integrative analysis of DNA methylation and gene expression in butyrate-treated CHO cells. Elsevier.Volume 257, 150--161. DOI: 10.1016/j.jbiotec.2016.11.020

2015

Rupp, O., Brinkrolf, K., Buerth, C., Kunigo, M., Schneider, J., Jaenicke, S., Goesmann, A., Pühler, A., Jaeger, K., Ernst, J.. (2015). The structure of the Cyberlindnera jadinii genome and its relation to Candida utilis analyzed by the occurrence of single nucleotide polymorphisms. Elsevier.Volume 211, 20--30. DOI: 10.1016/j.jbiotec.2015.06.423

Wippermann, A., Rupp, O., Brinkrolf, K., Hoffrogge, R., Noll, T.. (2015). The DNA methylation landscape of Chinese hamster ovary (CHO) DP-12 cells. Elsevier.Volume 199, 38--46. DOI: 10.1016/j.jbiotec.2015.02.014

Merten, M., Brinkrolf, K., Albersmeier, A., Kutter, Y., Rückert, C., Tauch, A.. (2015). Complete genome sequence and annotation of Corynebacterium singulare DSM 44357, isolated from a human semen specimen. Am Soc Microbiol.Volume 3(2), e00183--15. DOI: 10.1128/genomeA.00183-15

2014

Brinkrolf, K., Hoffrogge, R., Hackl, M., Tauch, A., Baumann, M., Noll, T., Goesmann, A., Pühler, A., Borth, N.. (2014). Animal Cell Biotechnology In Biologics P - Functional-Omics for Cell Lines and Processes: The-Omics Technologies on the Example of CHO Cells.

Glaub, A., Bomholt, C., Gravermann, K., Brinkrolf, K., Albersmeier, A., Rückert, C., Tauch, A.. (2014). Complete genome sequence of Corynebacterium falsenii DSM 44353 to study the evolution of Corynebacterium cluster 3 species. Am Soc Microbiol.Volume 2(2), e00158--14. DOI: 10.1128/genomeA.00158-14

Rupp, O., Becker, J., Brinkrolf, K., Timmermann, C., Borth, N., Pühler, A., Noll, T., Goesmann, A.. (2014). Construction of a public CHO cell line transcript database using versatile bioinformatics analysis pipelines. Public Library of Science San Francisco, USA.Volume 9(1), e85568. DOI: 10.1371/journal.pone.0085568

Jakobi, T., Brinkrolf, K., Tauch, A., Noll, T., Stoye, J., Pühler, A., Goesmann, A.. (2014). Discovery of transcription start sites in the Chinese hamster genome by next-generation RNA sequencing. Elsevier.Volume 190, 64--75. DOI: 10.1016/j.jbiotec.2014.07.437

Becker, J., Timmermann, C., Rupp, O., Albaum, S., Brinkrolf, K., Goesmann, A., Pühler, A., Tauch, A., Noll, T.. (2014). Transcriptome analyses of CHO cells with the next-generation microarray CHO41K: Development and validation by analysing the influence of the growth stimulating substance IGF-1 substitute LongR3. Elsevier.Volume 178, 23--31. DOI: 10.1016/j.jbiotec.2014.02.021

Tippelt, A., Albersmeier, A., Brinkrolf, K., Rückert, C., Fernández-Natal, I., Soriano, F., Tauch, A.. (2014). Complete genome sequence of Corynebacterium ureicelerivorans DSM 45051, a lipophilic and urea-splitting isolate from the blood culture of a septicemia patient. Am Soc Microbiol.Volume 2(6), e01211--14. DOI: 10.1128/genomeA.01211-14

2013

Brinkrolf, K., Rupp, O., Laux, H., Kollin, F., Ernst, W., Linke, B., Kofler, R., Romand, S., Hesse, F., Budach, W., others. (2013). Chinese hamster genome sequenced from sorted chromosomes. Nature Publishing Group US New York.Volume 31(8), 694--695. DOI: 10.1038/nbt.2645

Bomholt, C., Glaub, A., Gravermann, K., Albersmeier, A., Brinkrolf, K., Rückert, C., Tauch, A.. (2013). Whole-genome sequence of the clinical strain Corynebacterium argentoratense DSM 44202, isolated from a human throat specimen. Am Soc Microbiol.Volume 1(5), e00793--13. DOI: 10.1128/genomeA.00793-13

2012

Brinkrolf, K., Schneider, J., Knecht, M., Rückert, C., Tauch, A.. (2012). Draft genome sequence of Turicella otitidis ATCC 51513, isolated from middle ear fluid from a child with otitis media. Am Soc Microbiol. DOI: https://doi.org/10.1128/jb.01412-12

Meleady, P., Hoffrogge, R., Henry, M., Rupp, O., Bort, J., Clarke, C., Brinkrolf, K., Kelly, S., Müller, B., Doolan, P., others. (2012). Utilization and evaluation of CHO-specific sequence databases for mass spectrometry based proteomics. Wiley Online Library.Volume 109(6), 1386--1394. DOI: 10.1002/bit.24476

Schneider, J., Andrea, H., Blom, J., Jaenicke, S., Rückert, C., Schorsch, C., Szczepanowski, R., Farwick, M., Goesmann, A., Pühler, A., others. (2012). Draft genome sequence of Wickerhamomyces ciferrii NRRL Y-1031 F-60-10. Am Soc Microbiol. DOI: 10.1128/EC.00258-12

Schneider, J., Rupp, O., Trost, E., Jaenicke, S., Passoth, V., Goesmann, A., Tauch, A., Brinkrolf, K.. (2012). Genome sequence of Wickerhamomyces anomalus DSM 6766 reveals genetic basis of biotechnologically important antimicrobial activities. Blackwell Publishing Ltd Oxford, UK.Volume 12(3), 382--386. DOI: 10.1111/j.1567-1364.2012.00791.x

Hackl, M., Jadhav, V., Jakobi, T., Rupp, O., Brinkrolf, K., Goesmann, A., Pühler, A., Noll, T., Borth, N., Grillari, J.. (2012). Computational identification of microRNA gene loci and precursor microRNA sequences in CHO cell lines. Elsevier.Volume 158(3), 151--155. DOI: 10.1016/j.jbiotec.2012.01.019

2011

Hackl, M., Jakobi, T., Blom, J., Doppmeier, D., Brinkrolf, K., Szczepanowski, R., Bernhart, S., Zu Siederdissen, C., Bort, J., Wieser, M., others. (2011). Next-generation sequencing of the Chinese hamster ovary microRNA transcriptome: Identification, annotation and profiling of microRNAs as targets for cellular engineering. Elsevier.Volume 153(1-2), 62--75. DOI: 10.1016/j.jbiotec.2011.02.011

Schneider, J., Blom, J., Jaenicke, S., Linke, B., Brinkrolf, K., Neuweger, H., Tauch, A., Goesmann, A.. (2011). RAPYD—rapid annotation platform for yeast data. Elsevier.Volume 155(1), 118--126. DOI: 10.1016/j.jbiotec.2010.10.076

Becker, J., Hackl, M., Rupp, O., Jakobi, T., Schneider, J., Szczepanowski, R., Bekel, T., Borth, N., Goesmann, A., Grillari, J., others. (2011). Unraveling the Chinese hamster ovary cell line transcriptome by next-generation sequencing. Elsevier.Volume 156(3), 227--235. DOI: 10.1016/j.jbiotec.2011.09.014

Küberl, A., Schneider, J., Thallinger, G., Anderl, I., Wibberg, D., Hajek, T., Jaenicke, S., Brinkrolf, K., Goesmann, A., Szczepanowski, R., others. (2011). High-quality genome sequence of Pichia pastoris CBS7435. Elsevier.Volume 154(4), 312--320. DOI: 10.1016/j.jbiotec.2011.04.014

Becker, J., Timmermann, C., Jakobi, T., Rupp, O., Szczepanowski, R., Hackl, M., Goesmann, A., Tauch, A., Borth, N., Grillari, J., others. (2011). Next-generation sequencing of the CHO cell transcriptome. Volume 5, 1--2. DOI: 10.1186/1753-6561-5-S8-P6

2010

Brinkrolf, K., Schröder, J., Pühler, A., Tauch, A.. (2010). The transcriptional regulatory repertoire of Corynebacterium glutamicum: reconstruction of the network controlling pathways involved in lysine and glutamate production. Elsevier.Volume 149(3), 173--182. DOI: 10.1016/j.jbiotec.2009.12.004

2009

Jochmann, N., Kurze, A., Czaja, L., Brinkrolf, K., Brune, I., Huser, A., Hansmeier, N., Puhler, A., Borovok, I., Tauch, A.. (2009). Genetic makeup of the Corynebacterium glutamicum LexA regulon deduced from comparative transcriptomics and in vitro DNA band shift assays. Microbiology Society.Volume 155(5), 1459--1477. DOI: 10.1099/mic.0.025841-0

Nentwich, S., Brinkrolf, K., Gaigalat, L., Huser, A., Rey, D., Mohrbach, T., Marin, K., Puhler, A., Tauch, A., Kalinowski, J.. (2009). Characterization of the LacI-type transcriptional repressor RbsR controlling ribose transport in Corynebacterium glutamicum ATCC 13032. Microbiology Society.Volume 155(1), 150--164. DOI: 10.1099/mic.0.020388-0

2008

Brinkrolf, K., Plöger, S., Solle, S., Brune, I., Nentwich, S., Hüser, A., Kalinowski, J., Pühler, A., Tauch, A.. (2008). The LacI/GalR family transcriptional regulator UriR negatively controls uridine utilization of Corynebacterium glutamicum by binding to catabolite-responsive element (cre)-like sequences. Microbiology Society.Volume 154(4), 1068--1081. DOI: 10.1099/mic.0.2007/014001-0

Tauch, A., Schneider, J., Szczepanowski, R., Tilker, A., Viehoever, P., Gartemann, K., Arnold, W., Blom, J., Brinkrolf, K., Brune, I., others. (2008). Ultrafast pyrosequencing of Corynebacterium kroppenstedtii DSM44385 revealed insights into the physiology of a lipophilic corynebacterium that lacks mycolic acids. Elsevier.Volume 136(1-2), 22--30. DOI: 10.1016/j.jbiotec.2008.03.004

Brinkrolf, K.. (2008). Das transkriptionelle Regulationsnetzwerk von Corynebacterium glutamicum unter Einbeziehung des LacI/GaIR-Regulators UriR.

Tauch, A., Trost, E., Tilker, A., Ludewig, U., Schneiker, S., Goesmann, A., Arnold, W., Bekel, T., Brinkrolf, K., Brune, I., others. (2008). The lifestyle of Corynebacterium urealyticum derived from its complete genome sequence established by pyrosequencing. Elsevier.Volume 136(1-2), 11--21. DOI: 10.1016/j.jbiotec.2008.02.009

2007

Baumbach, J., Wittkop, T., Rademacher, K., Rahmann, S., Brinkrolf, K., Tauch, A.. (2007). CoryneRegNet 3.0—an interactive systems biology platform for the analysis of gene regulatory networks in corynebacteria and Escherichia coli. Elsevier.Volume 129(2), 279--289. DOI: 10.1016/j.jbiotec.2006.12.012

Brinkrolf, K., Brune, I., Tauch, A.. (2007). The transcriptional regulatory network of the amino acid producer Corynebacterium glutamicum. Elsevier.Volume 129(2), 191--211. DOI: 10.1016/j.jbiotec.2006.12.013

Brune, I., Jochmann, N., Brinkrolf, K., Hüser, A., Gerstmeir, R., Eikmanns, B., Kalinowski, J., Pühler, A., Tauch, A.. (2007). The IclR-type transcriptional repressor LtbR regulates the expression of leucine and tryptophan biosynthesis genes in the amino acid producer Corynebacterium glutamicum. Am Soc Microbiol.Volume 189(7), 2720--2733. DOI: 10.1128/JB.01876-06

2006

Baumbach, J., Brinkrolf, K., Czaja, L., Rahmann, S., Tauch, A.. (2006). CoryneRegNet: an ontology-based data warehouse of corynebacterial transcription factors and regulatory networks. Springer.Volume 7(1), 1--12. DOI: 10.1186/1471-2164-7-24

Baumbach, J., Brinkrolf, K., Wittkop, T., Tauch, A., Rahmann, S.. (2006). CoryneRegNet 2: an integrative bioinformatics approach for reconstruction and comparison of transcriptional regulatory networks in prokaryotes. De Gruyter.Volume 3(2), 1--13. DOI: 10.1515/jib-2006-24

Brinkrolf, K., Brune, I., Tauch, A.. (2006). Transcriptional regulation of catabolic pathways for aromatic compounds in Corynebacterium glutamicum. Volume 5(4), 773--789. PMID: 17183485

2005

Brune, I., Brinkrolf, K., Kalinowski, J., Pühler, A., Tauch, A.. (2005). The individual and common repertoire of DNA-binding transcriptional regulators of Corynebacterium glutamicum, Corynebacterium efficiens, Corynebacterium diphtheriae and Corynebacterium jeikeium deduced from the complete genome sequences. Springer.Volume 6, 1--10. DOI: 10.1186/1471-2164-6-86