Makedonka Mitreva

2015

The Dynamic Genome and Transcriptome of the Human Fungal Pathogen Blastomyces and Close Relative Emmonsia

Muñoz, J. F., Gauthier, G. M., Desjardins, C. A., Gallo, J. E., Holder, J., Sullivan, T. D., Marty, A. J., Carmen, J. C., Chen, Z., Ding, L., Gujja, S., Magrini, V., Misas, E., Mitreva, M., Priest, M., Saif, S., Whiston, E. A., Young, S., Zeng, Q. & Goldman, W. E. & 6 others, Mardis, E. R., Taylor, J. W., McEwen, J. G., Clay, O. K., Klein, B. S. & Cuomo, C. A., 2015, In: PLoS genetics. 11, 10, e1005493.

Research output: Contribution to journal › Article › peer-review

Open Access

52 Scopus citations

The effect of dietary resistant starch type 2 on the microbiota and markers of gut inflammation in rural Malawi children

Ordiz, M. I., May, T. D., Mihindukulasuriya, K., Martin, J., Crowley, J., Tarr, P. I., Ryan, K., Mortimer, E., Gopalsamy, G., Maleta, K., Mitreva, M., Young, G. & Manary, M. J., Sep 3 2015, In: Microbiome. 3, p. 37 1 p.

Research output: Contribution to journal › Article › peer-review

Open Access

57 Scopus citations

2014

Analysis of the transcriptome of adult Dictyocaulus filaria and comparison with Dictyocaulus viviparus, with a focus on molecules involved in host-parasite interactions

Mangiola, S., Young, N. D., Sternberg, P. W., Strube, C., Korhonen, P. K., Mitreva, M., Scheerlinck, J. P., Hofmann, A., Jex, A. R. & Gasser, R. B., 2014, In: International Journal for Parasitology. 44, 3-4, p. 251-261 11 p.

Research output: Contribution to journal › Article › peer-review

6 Scopus citations

A systematic analysis of biosynthetic gene clusters in the human microbiome reveals a common family of antibiotics.

Donia, M. S., Cimermancic, P., Schulze, C. J., Wieland Brown, L. C., Martin, J., Mitreva, M., Clardy, J., Linington, R. G. & Fischbach, M. A., 2014, In: Cell. 158, 6, p. 1402-1414 13 p.

Research output: Contribution to journal › Article › peer-review

Open Access

509 Scopus citations

Exploration of bacterial community classes in major human habitats

Zhou, Y., Mihindukulasuriya, K. A., Gao, H., La Rosa, P. S., Wylie, K. M., Martin, J. C., Kota, K., Shannon, W. D., Mitreva, M., Sodergren, E. & Weinstock, G. M., 2014, In: Genome biology. 15, 5, p. R66

Research output: Contribution to journal › Article › peer-review

Open Access

101 Scopus citations

Genome of the human hookworm Necator americanus

Tang, Y. T., Gao, X., Rosa, B. A., Abubucker, S., Hallsworth-Pepin, K., Martin, J., Tyagi, R., Heizer, E., Zhang, X., Bhonagiri-Palsikar, V., Minx, P., Warren, W. C., Wang, Q., Zhan, B., Hotez, P. J., Sternberg, P. W., Dougall, A., Gaze, S. T., Mulvenna, J. & Sotillo, J. & 9 others, Ranganathan, S., Rabelo, E. M., Wilson, R. K., Felgner, P. L., Bethony, J., Hawdon, J. M., Gasser, R. B., Loukas, A. & Mitreva, M., Mar 2014, In: Nature Genetics. 46, 3, p. 261-269 9 p.

Research output: Contribution to journal › Article › peer-review

Open Access

153 Scopus citations

Genome-Wide Tissue-Specific Gene Expression, Co-expression and Regulation of Co-expressed Genes in Adult Nematode Ascaris suum

Rosa, B. A., Jasmer, D. P. & Mitreva, M., Feb 2014, In: PLoS neglected tropical diseases. 8, 2, e2678.

Research output: Contribution to journal › Article › peer-review

Open Access

40 Scopus citations

Identification and characterization of alternative splicing in parasitic nematode transcriptomes

Abubucker, S., McNulty, S. N., Rosa, B. A. & Mitreva, M., Apr 1 2014, In: Parasites and Vectors. 7, 1, 151.

Research output: Contribution to journal › Article › peer-review

Open Access

5 Scopus citations

Impact of experimental hookworm infection on the human gut microbiota

Cantacessi, C., Giacomin, P., Croese, J., Zakrzewski, M., Sotillo, J., McCann, L., Nolan, M. J., Mitreva, M., Krause, L. & Loukas, A., Nov 1 2014, In: Journal of Infectious Diseases. 210, 9, p. 1431-1434 4 p.

Research output: Contribution to journal › Article › peer-review

Open Access

110 Scopus citations

Mining novel effector proteins from the esophageal gland cells of meloidogyne incognita

Rutter, W. B., Hewezi, T., Abubucker, S., Maier, T. R., Huang, G., Mitreva, M., Hussey, R. S. & Baum, T. J., Sep 2014, In: Molecular Plant-Microbe Interactions. 27, 9, p. 965-974 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

37 Scopus citations

Proteomics elucidates key molecules involved in exsheathment in vitro in Oesophagostomum dentatum

Ondrovics, M., Silbermayr, K., Mitreva, M., Young, N. D., Gasser, R. B. & Joachim, A., Oct 1 2014, In: International Journal for Parasitology. 44, 11, p. 759-764 6 p.

Research output: Contribution to journal › Article › peer-review

Open Access

3 Scopus citations

Secreted proteomes of different developmental stages of the gastrointestinal nematode Nippostrongylus brasiliensis

Sotillo, J., Sanchez-Flores, A., Cantacessi, C., Harcus, Y., Pickering, D., Bouchery, T., Camberis, M., Tang, S. C., Giacomin, P., Mulvenna, J., Mitreva, M., Berriman, M., LeGros, G., Maizels, R. M. & Loukas, A., Oct 1 2014, In: Molecular and Cellular Proteomics. 13, 10, p. 2736-2751 16 p.

Research output: Contribution to journal › Article › peer-review

Open Access

72 Scopus citations

Sepsis from the gut: The enteric habitat of bacteria that cause late-onset neonatal bloodstream infections

Carl, M. A., Ndao, I. M., Springman, A. C., Manning, S. D., Johnson, J. R., Johnston, B. D., Burnham, C. A. D., Weinstock, E. S., Weinstock, G. M., Wylie, T. N., Mitreva, M., Abubucker, S., Zhou, Y., Stevens, H. J., Hall-Moore, C., Julian, S., Shaikh, N., Warner, B. B. & Tarr, P. I., May 1 2014, In: Clinical Infectious Diseases. 58, 9, p. 1211-1218 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

151 Scopus citations

Systems Biology Studies of Adult Paragonimus Lung Flukes Facilitate the Identification of Immunodominant Parasite Antigens

McNulty, S. N., Fischer, P. U., Townsend, R. R., Curtis, K. C., Weil, G. J. & Mitreva, M., 2014, In: PLoS neglected tropical diseases. 8, 10

Research output: Contribution to journal › Article › peer-review

Open Access

27 Scopus citations

The prevalence of species and strains in the human microbiome: A resource for experimental efforts

Kraal, L., Abubucker, S., Kota, K., Fischbach, M. A. & Mitreva, M., May 14 2014, In: PloS one. 9, 5, e97279.

Research output: Contribution to journal › Article › peer-review

Open Access

79 Scopus citations

2013

A nuclear single-nucleotide polymorphism (SNP) potentially useful for the separation of Rhodnius prolixus from members of the Rhodnius robustus cryptic species complex (Hemiptera: Reduviidae)

Pavan, M. G., Mesquita, R. D., Lawrence, G. G., Lazoski, C., Dotson, E. M., Abubucker, S., Mitreva, M., Randall-Maher, J. & Monteiro, F. A., Mar 2013, In: Infection, Genetics and Evolution. 14, 1, p. 426-433 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

18 Scopus citations

Coverage theories for metagenomic DNA sequencing based on a generalization of Stevens' theorem

Wendl, M. C., Kota, K., Weinstock, G. M. & Mitreva, M., Nov 2013, In: Journal of Mathematical Biology. 67, 5, p. 1141-1161 21 p.

Research output: Contribution to journal › Article › peer-review

Open Access

22 Scopus citations

Discovery of Anthelmintic Drug Targets and Drugs Using Chokepoints in Nematode Metabolic Pathways

Taylor, C. M., Wang, Q., Rosa, B. A., Huang, S. C. C., Powell, K., Schedl, T., Pearce, E. J., Abubucker, S. & Mitreva, M., Aug 2013, In: PLoS pathogens. 9, 8, e1003505.

Research output: Contribution to journal › Article › peer-review

Open Access

72 Scopus citations

Gene expression analysis distinguishes tissue-specific and gender-related functions among adult Ascaris suum tissues

Wang, Z., Gao, X., Martin, J., Yin, Y., Abubucker, S., Rash, A. C., Li, B. W., Nash, B., Hallsworth-Pepin, K., Jasmer, D. P. & Mitreva, M., Jun 2013, In: Molecular Genetics and Genomics. 288, 5-6, p. 243-260 18 p.

Research output: Contribution to journal › Article › peer-review

5 Scopus citations

Gene expression analysis of ABC transporters in a resistant Cooperia oncophora isolate following in vivo and in vitro exposure to macrocyclic lactones.

De Graef, J., Demeler, J., Skuce, P., Mitreva, M., Von Samson-Himmelstjerna, G., Vercruysse, J., Claerebout, E. & Geldhof, P., Apr 2013, In: Unknown Journal. 140, 4, p. 499-508 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

48 Scopus citations

Genomic variation landscape of the human gut microbiome

Schloissnig, S., Arumugam, M., Sunagawa, S., Mitreva, M., Tap, J., Zhu, A., Waller, A., Mende, D. R., Kultima, J. R., Martin, J., Kota, K., Sunyaev, S. R., Weinstock, G. M. & Bork, P., Jan 3 2013, In: Nature. 493, 7430, p. 45-50 6 p.

Research output: Contribution to journal › Article › peer-review

Open Access

643 Scopus citations

In-depth proteomic and glycomic analysis of the adult-stage Cooperia oncophora excretome/secretome

Borloo, J., De Graef, J., Peelaers, I., Nguyen, D. L., Mitreva, M., Devreese, B., Hokke, C. H., Vercruysse, J., Claerebout, E. & Geldhof, P., Sep 6 2013, In: Journal of Proteome Research. 12, 9, p. 3900-3911 12 p.

Research output: Contribution to journal › Article › peer-review

23 Scopus citations

Precise dissection of an escherichia coli o157:H7 outbreak by single nucleotide polymorphism analysis

Turabelidze, G., Lawrence, S. J., Gao, H., Sodergren, E., Weinstock, G. M., Abubucker, S., Wylie, T., Mitreva, M., Shaikh, N., Gautom, R. & Tarr, P. I., Dec 2013, In: Journal of clinical microbiology. 51, 12, p. 3950-3954 5 p.

Research output: Contribution to journal › Article › peer-review

Open Access

34 Scopus citations

Proteomic Analysis of Oesophagostomum dentatum (Nematoda) during Larval Transition, and the Effects of Hydrolase Inhibitors on Development

Ondrovics, M., Silbermayr, K., Mitreva, M., Young, N. D., Razzazi-Fazeli, E., Gasser, R. B. & Joachim, A., May 22 2013, In: PloS one. 8, 5, e63955.

Research output: Contribution to journal › Article › peer-review

Open Access

13 Scopus citations

TIMPs of parasitic helminths - A large-scale analysis of high-throughput sequence datasets

Cantacessi, C., Hofmann, A., Pickering, D., Navarro, S., Mitreva, M. & Loukas, A., 2013, In: Parasites and Vectors. 6, 1, 156.

Research output: Contribution to journal › Article › peer-review

Open Access

17 Scopus citations

Transcriptome analyses reveal protein and domain families that delineate stage-related development in the economically important parasitic nematodes, Ostertagia ostertagi and Cooperia oncophora

Heizer, E., Zarlenga, D. S., Rosa, B., Gao, X., Gasser, R. B., De Graef, J., Geldhof, P. & Mitreva, M., Feb 22 2013, In: BMC genomics. 14, 1, 118.

Research output: Contribution to journal › Article › peer-review

Open Access

27 Scopus citations

Using Existing Drugs as Leads for Broad Spectrum Anthelmintics Targeting Protein Kinases

Taylor, C. M., Martin, J., Rao, R. U., Powell, K., Abubucker, S. & Mitreva, M., Feb 2013, In: PLoS pathogens. 9, 2, e1003149.

Research output: Contribution to journal › Article › peer-review

Open Access

33 Scopus citations

Widespread colonization of the lung by Tropheryma whipplei in HIV infection

Lozupone, C., Cota-Gomez, A., Palmer, B. E., Linderman, D. J., Charlson, E. S., Sodergren, E., Mitreva, M., Abubucker, S., Martin, J., Yao, G., Campbell, T. B., Flores, S. C., Ackerman, G., Stombaugh, J., Ursell, L., Beck, J. M., Curtis, J. L., Young, V. B., Lynchv, S. V. & Huang, L. & 9 others, Weinstock, G. M., Knox, K. S., Twigg, H., Morris, A., Ghedin, E., Bushman, F. D., Collman, R. G., Knight, R. & Fontenot, A. P., May 15 2013, In: American journal of respiratory and critical care medicine. 187, 10, p. 1110-1117 8 p.

Research output: Contribution to journal › Article › peer-review

157 Scopus citations

2012

A framework for human microbiome research

Methé, B. A., Nelson, K. E., Pop, M., Creasy, H. H., Giglio, M. G., Huttenhower, C., Gevers, D., Petrosino, J. F., Abubucker, S., Badger, J. H., Chinwalla, A. T., Earl, A. M., Fitzgerald, M. G., Fulton, R. S., Hallsworth-Pepin, K., Lobos, E. A., Madupu, R., Magrini, V., Martin, J. C. & Mitreva, M. & 228 others, Muzny, D. M., Sodergren, E. J., Versalovic, J., Wollam, A. M., Worley, K. C., Wortman, J. R., Young, S. K., Zeng, Q., Aagaard, K. M., Abolude, O. O., Allen-Vercoe, E., Alm, E. J., Alvarado, L., Andersen, G. L., Anderson, S., Appelbaum, E., Arachchi, H. M., Armitage, G., Arze, C. A., Ayvaz, T., Baker, C. C., Begg, L., Belachew, T., Bhonagiri, V., Bihan, M., Blaser, M. J., Bloom, T., Bonazzi, V. R., Brooks, P., Buck, G. A., Buhay, C. J., Busam, D. A., Campbell, J. L., Canon, S. R., Cantarel, B. L., Chain, P. S., Chen, I. M. A., Chen, L., Chhibba, S., Chu, K., Ciulla, D. M., Clemente, J. C., Clifton, S. W., Conlan, S., Crabtree, J., Cutting, M. A., Davidovics, N. J., Davis, C. C., Desantis, T. Z., Deal, C., Delehaunty, K. D., Dewhirst, F. E., Deych, E., Ding, Y., Dooling, D. J., Dugan, S. P., Michael Dunne, W., Scott Durkin, A., Edgar, R. C., Erlich, R. L., Farmer, C. N., Farrell, R. M., Faust, K., Feldgarden, M., Felix, V. M., Fisher, S., Fodor, A. A., Forney, L., Foster, L., Di Francesco, V., Friedman, J., Friedrich, D. C., Fronick, C. C., Fulton, L. L., Gao, H., Garcia, N., Giannoukos, G., Giblin, C., Giovanni, M. Y., Goldberg, J. M., Goll, J., Gonzalez, A., Griggs, A., Gujja, S., Haas, B. J., Hamilton, H. A., Harris, E. L., Hepburn, T. A., Herter, B., Hoffmann, D. E., Holder, M. E., Howarth, C., Huang, K. H., Huse, S. M., Izard, J., Jansson, J. K., Jiang, H., Jordan, C., Joshi, V., Katancik, J. A., Keitel, W. A., Kelley, S. T., Kells, C., Kinder-Haake, S., King, N. B., Knight, R., Knights, D., Kong, H. H., Koren, O., Koren, S., Kota, K. C., Kovar, C. L., Kyrpides, N. C., La Rosa, P. S., Lee, S. L., Lemon, K. P., Lennon, N., Lewis, C. M., Lewis, L., Ley, R. E., Li, K., Liolios, K., Liu, B., Liu, Y., Lo, C. C., Lozupone, C. A., Dwayne Lunsford, R., Madden, T., Mahurkar, A. A., Mannon, P. J., Mardis, E. R., Markowitz, V. M., Mavrommatis, K., McCorrison, J. M., McDonald, D., McEwen, J., McGuire, A. L., McInnes, P., Mehta, T., Mihindukulasuriya, K. A., Miller, J. R., Minx, P. J., Newsham, I., Nusbaum, C., O'Laughlin, M., Orvis, J., Pagani, I., Palaniappan, K., Patel, S. M., Pearson, M., Peterson, J., Podar, M., Pohl, C., Pollard, K. S., Priest, M. E., Proctor, L. M., Qin, X., Raes, J., Ravel, J., Reid, J. G., Rho, M., Rhodes, R., Riehle, K. P., Rivera, M. C., Rodriguez-Mueller, B., Rogers, Y. H., Ross, M. C., Russ, C., Sanka, R. K., Sankar, P., Fah Sathirapongsasuti, J., Schloss, J. A., Schloss, P. D., Schmidt, T. M., Scholz, M., Schriml, L., Schubert, A. M., Segata, N., Segre, J. A., Shannon, W. D., Sharp, R. R., Sharpton, T. J., Shenoy, N., Sheth, N. U., Simone, G. A., Singh, I., Smillie, C. S., Sobel, J. D., Sommer, D. D., Spicer, P., Sutton, G. G., Sykes, S. M., Tabbaa, D. G., Thiagarajan, M., Tomlinson, C. M., Torralba, M., Treangen, T. J., Truty, R. M., Vishnivetskaya, T. A., Walker, J., Wang, L., Wang, Z., Ward, D. V., Warren, W., Watson, M. A., Wellington, C., Wetterstrand, K. A., White, J. R., Wilczek-Boney, K., Qing Wu, Y., Wylie, K. M., Wylie, T., Yandava, C., Ye, L., Ye, Y., Yooseph, S., Youmans, B. P., Zhang, L., Zhou, Y., Zhu, Y., Zoloth, L., Zucker, J. D., Birren, B. W., Gibbs, R. A., Highlander, S. K., Weinstock, G. M., Wilson, R. K. & White, O., Jun 14 2012, In: Nature. 486, 7402, p. 215-221 7 p.

Research output: Contribution to journal › Article › peer-review

Open Access

1989 Scopus citations

An analysis of the transcriptome of Teladorsagia circumcincta: its biological and biotechnological implications.

Menon, R., Gasser, R. B., Mitreva, M. & Ranganathan, S., 2012, In: Unknown Journal. 13 Suppl 7

Research output: Contribution to journal › Article › peer-review

Open Access

15 Scopus citations

Effects of Doxycycline on gene expression in Wolbachia and Brugia malayi adult female worms in vivo

Rao, R. U., Huang, Y., Abubucker, S., Heinz, M., Crosby, S. D., Mitreva, M. & Weil, G. J., 2012, In: Journal of Biomedical Science. 19, 1, 21.

Research output: Contribution to journal › Article › peer-review

Open Access

19 Scopus citations

Exploring metazoan evolution through dynamic and holistic changes in protein families and domains

Wang, Z., Zarlenga, D., Martin, J., Abubucker, S. & Mitreva, M., 2012, In: BMC Evolutionary Biology. 12, 1, 138.

Research output: Contribution to journal › Article › peer-review

Open Access

13 Scopus citations

Metabolic reconstruction for metagenomic data and its application to the human microbiome

Abubucker, S., Segata, N., Goll, J., Schubert, A. M., Izard, J., Cantarel, B. L., Rodriguez-Mueller, B., Zucker, J., Thiagarajan, M., Henrissat, B., White, O., Kelley, S. T., Methé, B., Schloss, P. D., Gevers, D., Mitreva, M. & Huttenhower, C., Jun 2012, In: PLoS computational biology. 8, 6, e1002358.

Research output: Contribution to journal › Article › peer-review

Open Access

773 Scopus citations

Nematode.net update 2011: Addition of data sets and tools featuring next-generation sequencing data

Martin, J., Abubucker, S., Heizer, E., Taylor, C. M. & Mitreva, M., Jan 2012, In: Nucleic acids research. 40, D1, p. D720-D728

Research output: Contribution to journal › Article › peer-review

Open Access

38 Scopus citations

Optimizing read mapping to reference genomes to determine composition and species prevalence in microbial communities

Martin, J., Sykes, S., Young, S., Kota, K., Sanka, R., Sheth, N., Orvis, J., Sodergren, E., Wang, Z., Weinstock, G. M. & Mitreva, M., Jun 13 2012, In: PloS one. 7, 6, e36427.

Research output: Contribution to journal › Article › peer-review

Open Access

43 Scopus citations

Silencing of Germline-Expressed Genes by DNA Elimination in Somatic Cells

Wang, J., Mitreva, M., Berriman, M., Thorne, A., Magrini, V., Koutsovoulos, G., Kumar, S., Blaxter, M. L. & Davis, R. E., Nov 13 2012, In: Developmental cell. 23, 5, p. 1072-1080 9 p.

Research output: Contribution to journal › Article › peer-review

Open Access

81 Scopus citations

Structure, function and diversity of the healthy human microbiome

Huttenhower, C., Gevers, D., Knight, R., Abubucker, S., Badger, J. H., Chinwalla, A. T., Creasy, H. H., Earl, A. M., Fitzgerald, M. G., Fulton, R. S., Giglio, M. G., Hallsworth-Pepin, K., Lobos, E. A., Madupu, R., Magrini, V., Martin, J. C., Mitreva, M., Muzny, D. M., Sodergren, E. J. & Versalovic, J. & 228 others, Wollam, A. M., Worley, K. C., Wortman, J. R., Young, S. K., Zeng, Q., Aagaard, K. M., Abolude, O. O., Allen-Vercoe, E., Alm, E. J., Alvarado, L., Andersen, G. L., Anderson, S., Appelbaum, E., Arachchi, H. M., Armitage, G., Arze, C. A., Ayvaz, T., Baker, C. C., Begg, L., Belachew, T., Bhonagiri, V., Bihan, M., Blaser, M. J., Bloom, T., Bonazzi, V., Paul Brooks, J., Buck, G. A., Buhay, C. J., Busam, D. A., Campbell, J. L., Canon, S. R., Cantarel, B. L., Chain, P. S. G., Chen, I. M. A., Chen, L., Chhibba, S., Chu, K., Ciulla, D. M., Clemente, J. C., Clifton, S. W., Conlan, S., Crabtree, J., Cutting, M. A., Davidovics, N. J., Davis, C. C., Desantis, T. Z., Deal, C., Delehaunty, K. D., Dewhirst, F. E., Deych, E., Ding, Y., Dooling, D. J., Dugan, S. P., Michael Dunne, W., Scott Durkin, A., Edgar, R. C., Erlich, R. L., Farmer, C. N., Farrell, R. M., Faust, K., Feldgarden, M., Felix, V. M., Fisher, S., Fodor, A. A., Forney, L. J., Foster, L., Di Francesco, V., Friedman, J., Friedrich, D. C., Fronick, C. C., Fulton, L. L., Gao, H., Garcia, N., Giannoukos, G., Giblin, C., Giovanni, M. Y., Goldberg, J. M., Goll, J., Gonzalez, A., Griggs, A., Gujja, S., Kinder Haake, S., Haas, B. J., Hamilton, H. A., Harris, E. L., Hepburn, T. A., Herter, B., Hoffmann, D. E., Holder, M. E., Howarth, C., Huang, K. H., Huse, S. M., Izard, J., Jansson, J. K., Jiang, H., Jordan, C., Joshi, V., Katancik, J. A., Keitel, W. A., Kelley, S. T., Kells, C., King, N. B., Knights, D., Kong, H. H., Koren, O., Koren, S., Kota, K. C., Kovar, C. L., Kyrpides, N. C., La Rosa, P. S., Lee, S. L., Lemon, K. P., Lennon, N., Lewis, C. M., Lewis, L., Ley, R. E., Li, K., Liolios, K., Liu, B., Liu, Y., Lo, C. C., Lozupone, C. A., Dwayne Lunsford, R., Madden, T., Mahurkar, A. A., Mannon, P. J., Mardis, E. R., Markowitz, V. M., Mavromatis, K., McCorrison, J. M., McDonald, D., McEwen, J., McGuire, A. L., McInnes, P., Mehta, T., Mihindukulasuriya, K. A., Miller, J. R., Minx, P. J., Newsham, I., Nusbaum, C., Oglaughlin, M., Orvis, J., Pagani, I., Palaniappan, K., Patel, S. M., Pearson, M., Peterson, J., Podar, M., Pohl, C., Pollard, K. S., Pop, M., Priest, M. E., Proctor, L. M., Qin, X., Raes, J., Ravel, J., Reid, J. G., Rho, M., Rhodes, R., Riehle, K. P., Rivera, M. C., Rodriguez-Mueller, B., Rogers, Y. H., Ross, M. C., Russ, C., Sanka, R. K., Sankar, P., Fah Sathirapongsasuti, J., Schloss, J. A., Schloss, P. D., Schmidt, T. M., Scholz, M., Schriml, L., Schubert, A. M., Segata, N., Segre, J. A., Shannon, W. D., Sharp, R. R., Sharpton, T. J., Shenoy, N., Sheth, N. U., Simone, G. A., Singh, I., Smillie, C. S., Sobel, J. D., Sommer, D. D., Spicer, P., Sutton, G. G., Sykes, S. M., Tabbaa, D. G., Thiagarajan, M., Tomlinson, C. M., Torralba, M., Treangen, T. J., Truty, R. M., Vishnivetskaya, T. A., Walker, J., Wang, L., Wang, Z., Ward, D. V., Warren, W., Watson, M. A., Wellington, C., Wetterstrand, K. A., White, J. R., Wilczek-Boney, K., Wu, Y., Wylie, K. M., Wylie, T., Yandava, C., Ye, L., Ye, Y., Yooseph, S., Youmans, B. P., Zhang, L., Zhou, Y., Zhu, Y., Zoloth, L., Zucker, J. D., Birren, B. W., Gibbs, R. A., Highlander, S. K., Methé, B. A., Nelson, K. E., Petrosino, J. F., Weinstock, G. M., Wilson, R. K. & White, O., Jun 14 2012, In: Nature. 486, 7402, p. 207-214 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

8315 Scopus citations

The genome of a blood fluke associated with human cancer

Mitreva, M., Feb 2012, In: Nature Genetics. 44, 2, p. 116-118 3 p.

Research output: Contribution to journal › Article › peer-review

11 Scopus citations

Transcription profiling reveals stage- and function-dependent expression patterns in the filarial nematode Brugia malayi

Li, B. W., Wang, Z., Rush, A. C., Mitreva, M. & Weil, G. J., May 14 2012, In: BMC genomics. 13, 1, 184.

Research output: Contribution to journal › Article › peer-review

Open Access

35 Scopus citations

Transcriptomic and Proteomic Analyses of a Wolbachia-Free Filarial Parasite Provide Evidence of Trans-Kingdom Horizontal Gene Transfer

McNulty, S. N., Abubucker, S., Simon, G. M., Mitreva, M., McNulty, N. P., Fischer, K., Curtis, K. C., Brattig, N. W., Weil, G. J. & Fischer, P. U., Sep 26 2012, In: PloS one. 7, 9, e45777.

Research output: Contribution to journal › Article › peer-review

Open Access

20 Scopus citations

2011

A vertebrate case study of the quality of assemblies derived from next-generation sequences

Ye, L., Hillier, L. D. W., Minx, P., Thane, N., Locke, D. P., Martin, J. C., Chen, L., Mitreva, M., Miller, J. R., Haub, K. V., Dooling, D. J., Mardis, E. R., Wilson, R. K., Weinstock, G. M. & Warren, W. C., Mar 31 2011, In: Genome biology. 12, 3, R31.

Research output: Contribution to journal › Article › peer-review

Open Access

27 Scopus citations

Comparative and demographic analysis of orang-utan genomes

Locke, D. P., Hillier, L. W., Warren, W. C., Worley, K. C., Nazareth, L. V., Muzny, D. M., Yang, S. P., Wang, Z., Chinwalla, A. T., Minx, P., Mitreva, M., Cook, L., Delehaunty, K. D., Fronick, C., Schmidt, H., Fulton, L. A., Fulton, R. S., Nelson, J. O., Magrini, V. & Pohl, C. & 81 others, Graves, T. A., Markovic, C., Cree, A., Dinh, H. H., Hume, J., Kovar, C. L., Fowler, G. R., Lunter, G., Meader, S., Heger, A., Ponting, C. P., Marques-Bonet, T., Alkan, C., Chen, L., Cheng, Z., Kidd, J. M., Eichler, E. E., White, S., Searle, S., Vilella, A. J., Chen, Y., Flicek, P., Ma, J., Raney, B., Suh, B., Burhans, R., Herrero, J., Haussler, D., Faria, R., Fernando, O., Darré, F., Farré, D., Gazave, E., Oliva, M., Navarro, A., Roberto, R., Capozzi, O., Archidiacono, N., Valle, G. D., Purgato, S., Rocchi, M., Konkel, M. K., Walker, J. A., Ullmer, B., Batzer, M. A., Smit, A. F. A., Hubley, R., Casola, C., Schrider, D. R., Hahn, M. W., Quesada, V., Puente, X. S., Ordõez, G. R., Ĺpez-Otín, C., Vinar, T., Brejova, B., Ratan, A., Harris, R. S., Miller, W., Kosiol, C., Lawson, H. A., Taliwal, V., Martins, A. L., Siepel, A., Roychoudhury, A., Ma, X., Degenhardt, J., Bustamante, C. D., Gutenkunst, R. N., Mailund, T., Dutheil, J. Y., Hobolth, A., Schierup, M. H., Ryder, O. A., Yoshinaga, Y., De Jong, P. J., Weinstock, G. M., Rogers, J., Mardis, E. R., Gibbs, R. A. & Wilson, R. K., Jan 27 2011, In: Nature. 469, 7331, p. 529-533 5 p.

Research output: Contribution to journal › Article › peer-review

Open Access

407 Scopus citations

Deep small RNA sequencing from the nematode Ascaris reveals conservation, functional diversification, and novel developmental profiles

Wang, J., Czech, B., Crunk, A., Wallace, A., Mitreva, M., Hannon, G. J. & Davis, R. E., Sep 2011, In: Genome research. 21, 9, p. 1462-1477 16 p.

Research output: Contribution to journal › Article › peer-review

Open Access

142 Scopus citations

Gender-associated genes in filarial nematodes are important for reproduction and potential intervention targets

Li, B. W., Rush, A. C., Jiang, D. J., Mitreva, M., Abubucker, S. & Weil, G. J., 2011, In: PLoS neglected tropical diseases. 5, 1, e947.

Research output: Contribution to journal › Article › peer-review

Open Access

25 Scopus citations

HelmCoP: An online resource for Helminth functional genomics and drug and vaccine targets prioritization

Abubucker, S., Martin, J., Taylor, C. M. & Mitreva, M., 2011, In: PloS one. 6, 7, e21832.

Research output: Contribution to journal › Article › peer-review

Open Access

16 Scopus citations

Life cycle stage-resolved proteomic analysis of the excretome/secretome from Strongyloides ratti - Identification of stage-specific proteases

Soblik, H., Younis, A. E., Mitreva, M., Renard, B. Y., Kirchner, M., Geisinger, F., Steen, H. & Brattig, N. W., Dec 2011, In: Molecular and Cellular Proteomics. 10, 12

Research output: Contribution to journal › Article › peer-review

Open Access

78 Scopus citations

RNAi effector diversity in nematodes

Dalzell, J. J., McVeigh, P., Warnock, N. D., Mitreva, M., Bird, D. M. K., Abad, P., Fleming, C. C., Day, T. A., Mousley, A., Marks, N. J. & Maule, A. G., Jun 2011, In: PLoS neglected tropical diseases. 5, 6, e1176.

Research output: Contribution to journal › Article › peer-review

Open Access

108 Scopus citations

Stage-specific excretory-secretory small heat shock proteins from the parasitic nematode Strongyloides ratti - Putative links to host's intestinal mucosal defense system

Younis, A. E., Geisinger, F., Ajonina-Ekoti, I., Soblik, H., Steen, H., Mitreva, M., Erttmann, K. D., Perbandt, M., Liebau, E. & Brattig, N. W., Sep 2011, In: FEBS Journal. 278, 18, p. 3319-3336 18 p.

Research output: Contribution to journal › Article › peer-review

Open Access

27 Scopus citations

Targeting protein-protein interactions for parasite control

Taylor, C. M., Fischer, K., Abubucker, S., Wang, Z., Martin, J., Jiang, D., Magliano, M., Rosso, M. N., Li, B. W., Fischer, P. U. & Mitreva, M., 2011, In: PloS one. 6, 4, e18381.

Research output: Contribution to journal › Article › peer-review

Open Access

20 Scopus citations

The draft genome of the parasitic nematode Trichinella spiralis

Mitreva, M., Jasmer, D. P., Zarlenga, D. S., Wang, Z., Abubucker, S., Martin, J., Taylor, C. M., Yin, Y., Fulton, L., Minx, P., Yang, S. P., Warren, W. C., Fulton, R. S., Bhonagiri, V., Zhang, X., Hallsworth-Pepin, K., Clifton, S. W., McCarter, J. P., Appleton, J. & Mardis, E. R. & 1 others, Wilson, R. K., Mar 2011, In: Nature Genetics. 43, 3, p. 228-235 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

260 Scopus citations

Makedonka Mitreva

Research output

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