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8. Genome Sequence of the Tsetse Fly (Glossina morsitans): Vector of African Trypanosomiasis

Author

Initiative, International Glossina Genome, Attardo, Geoffrey M, Abila, Patrick P, Auma, Joanna E, Baumann, Aaron A, Benoit, Joshua B, Brelsfoard, Corey L, Ribeiro, José MC, Cotton, James A, Pham, Daphne QD, Darby, Alistair C, Van Den Abbeele, Jan, Denlinger, David L, Field, Linda M, Nyanjom, Steven RG, Gaunt, Michael W, Geiser, Dawn L, Gomulski, Ludvik M, Haines, Lee R, Hansen, Immo A, Jones, Jeffery W, Kibet, Caleb K, Kinyua, Johnson K, Larkin, Denis M, Lehane, Michael J, Rio, Rita VM, Macdonald, Sandy J, Macharia, Rosaline W, Malacrida, Anna R, Marco, Heather G, Marucha, Kevin K, Masiga, Daniel K, Meuti, Megan E, Mireji, Paul O, Obiero, George FO, Koekemoer, Jacobus JO, Okoro, Chinyere K, Omedo, Irene A, Osamor, Victor C, Balyeidhusa, Apollo SP, Peyton, Justin T, Price, David P, Quail, Michael A, Ramphul, Urvashi N, Rawlings, Neil D, Riehle, Michael A, Robertson, Hugh M, Sanders, Mandy J, Scott, Maxwell J, Dashti, Zahra Jalali Sefid, Snyder, Anna K, Srivastava, Tulika P, Stanley, Eleanor J, Swain, Martin T, Hughes, Daniel ST, Tarone, Aaron M, Taylor, Todd D, Telleria, Erich L, Thomas, Gavin H, Walshe, Deirdre P, Wilson, Richard K, Winzerling, Joy J, Acosta-Serrano, Alvaro, Aksoy, Serap, Arensburger, Peter, Aslett, Martin, Bateta, Rosemary, Benkahla, Alia, Berriman, Matthew, Bourtzis, Kostas, Caers, Jelle, Caljon, Guy, Christoffels, Alan, Falchetto, Marco, Friedrich, Markus, Fu, Shuhua, Gäde, Gerd, Githinji, George, Gregory, Richard, Hall, Neil, Harkins, Gordon, Hattori, Masahira, Hertz-Fowler, Christiane, Hide, Winston, Hu, Wanqi, Imanishi, Tadashi, Inoue, Noboru, Jonas, Mario, Kawahara, Yoshihiro, Koffi, Mathurin, Kruger, Adele, Lawson, Daniel, Lehane, Stella, Lehväslaiho, Heikki, Luiz, Thiago, Makgamathe, Mmule, Malele, Imna, Manangwa, Oliver, Manga, Lucien, and Megy, Karyn

Subjects
Vector-Borne Diseases, Genetics, Prevention, Infectious Diseases, Biotechnology, 2.2 Factors relating to the physical environment, Aetiology, Infection, Good Health and Well Being, Animals, Blood, Feeding Behavior, Female, Genes, Insect, Genome, Insect, Insect Proteins, Insect Vectors, Microbiota, Molecular Sequence Annotation, Molecular Sequence Data, Reproduction, Salivary Glands, Sensation, Sequence Analysis, DNA, Symbiosis, Trypanosoma, Trypanosomiasis, African, Tsetse Flies, Wolbachia, International Glossina Genome Initiative, General Science & Technology
Abstract

Tsetse flies are the sole vectors of human African trypanosomiasis throughout sub-Saharan Africa. Both sexes of adult tsetse feed exclusively on blood and contribute to disease transmission. Notable differences between tsetse and other disease vectors include obligate microbial symbioses, viviparous reproduction, and lactation. Here, we describe the sequence and annotation of the 366-megabase Glossina morsitans morsitans genome. Analysis of the genome and the 12,308 predicted protein-encoding genes led to multiple discoveries, including chromosomal integrations of bacterial (Wolbachia) genome sequences, a family of lactation-specific proteins, reduced complement of host pathogen recognition proteins, and reduced olfaction/chemosensory associated genes. These genome data provide a foundation for research into trypanosomiasis prevention and yield important insights with broad implications for multiple aspects of tsetse biology.

Published
2014

11. Construction and Analysis of a Human-Chimpanzee Comparative Clone Map

Author

Fujiyama, Asao, Watanabe, Hidemi, Toyoda, Atsushi, Taylor, Todd D., Itoh, Takehiko, Tsai, Shih-Feng, Park, Hong-Seog, Yaspo, Marie-Laure, Lehrach, Hans, Chen, Zhu, Fu, Gang, Saitou, Naruya, Osoegawa, Kazutoyo, de Jong, Pieter J., Suto, Yumiko, Hattori, Masahira, and Sakaki, Yoshiyuki

Published
2002

14. MetaBin

Author

Sharma, Vineet K., Taylor, Todd D., and Nelson, Karen E., editor

Published
2015
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15. HMGJ (Japan)

Author

Hattori, Masahira, Taylor, Todd D., Highlander, Sarah K., editor, Rodriguez-Valera, Francisco, editor, and White, Bryan A., editor

Published
2015
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21. Bifidobacteria can protect from enteropathogenic infection through production of acetate

Author

Fukuda, Shinji, Toh, Hidehiro, Hase, Koji, Oshima, Kenshiro, Nakanishi, Yumiko, Yoshimura, Kazutoshi, Tobe, Toru, Clarke, Julie M., Topping, David L., Suzuki, Tohru, Taylor, Todd D., Itoh, Kikuji, Kikuchi, Jun, Morita, Hidetoshi, Hattori, Masahira, and Ohno, Hiroshi

Subjects
Care and treatment, Physiological aspects, Health aspects, Bifidobacteria -- Health aspects -- Physiological aspects, Escherichia coli infections -- Care and treatment, Acetates -- Health aspects -- Physiological aspects, Bifidobacterium -- Health aspects -- Physiological aspects
Abstract

Enterohaemorrhagic Escherichia coli (EHEC) causes illnesses ranging from mild diarrhoea to severe diseases such as haemorrhagic colitis and haemolytic uraemic syndrome (7,8). EHEC O157:H7, which produces Shiga toxin (Stx), is [...], The human gut is colonized with a wide variety of microorganisms, including species, such as those belonging to the bacterial genus Bifidobacterium, that have beneficial effects on human physiology and pathology (1-3). Among the most distinctive benefits of bifidobacteria are modulation of host defence responses and protection against infectious diseases (4-6). Nevertheless, the molecular mechanisms underlying these effects have barely been elucidated. To investigate these mechanisms, we used mice associated with certain bifidobacterial strains and a simplified model of lethal infection with enterohaemorrhagic Escherichia coli O157:H7, together with an integrated 'omics' approach. Here we show that genes encoding an ATP-binding-cassette-type carbohydrate transporter present in certain bifidobacteria contribute to protecting mice against death induced by E. coli O157:H7. We found that this effect can be attributed, at least in part, to increased production of acetate and that translocation of the E. coli O157:H7 Shiga toxin from the gut lumen to the blood was inhibited. We propose that acetate produced by protective bifidobacteria improves intestinal defence mediated by epithelial cells and thereby protects the host against lethal infection.

Published
2011
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23. Human chromosome 11 DNA sequence and analysis including novel gene identification

Author

Taylor, Todd D., Noguchi, Hideki, Totoki, Yasushi, Toyoda, Atsushi, Kuroki, Yoko, Dewar, Ken, Lloyd, Christine, Itoh, Takehiko, Takeda, Tadayuki, Kim, Dae-Won, She, Xinwei, Barlow, Karen F., Bloom, Toby, Bruford, Elspeth, Chang, Jean L., Cuomo, Christina A., Eichler, Evan, FitzGerald, Michael G., Jaffe, David B., LaButti, Kurt, Nicol, Robert, Park, Hong-Seog, Seaman, Christopher, Sougnez, Carrie, Yang, Xiaoping, Zimmer, Andrew R., Zody, Michael C., Birren, Bruce W., Nusbaum, Chad, Fujiyama, Asao, Hattori, Masahira, Rogers, Jane, Lander, Eric S., and Sakaki, Yoshiyuki

Abstract

Author(s): Todd D. Taylor (corresponding author) [1]; Hideki Noguchi [1, 10]; Yasushi Totoki [1]; Atsushi Toyoda [1]; Yoko Kuroki [1]; Ken Dewar [2, 10]; Christine Lloyd [3]; Takehiko Itoh [4]; [...]

Published
2006
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25. DNA sequence and analysis of human chromosome 18

Author

Nusbaum, Chad, Zody, Michael C., Borowsky, Mark L., Kamal, Michael, Kodira, Chinnappa D., Taylor, Todd D., Whittaker, Charles A., Chang, Jean L., Cuomo, Christina A., Dewar, Ken, FitzGerald, Michael G., Yang, Xiaoping, Abouelleil, Amr, Allen, Nicole R., Anderson, Scott, Bloom, Toby, Bugalter, Boris, Butler, Jonathan, Cook, April, DeCaprio, David, Engels, Reinhard, Garber, Manuel, Gnirke, Andreas, Hafez, Nabil, Hall, Jennifer L., Norman, Catherine Hosage, Itoh, Takehiko, Jaffe, David B., Kuroki, Yoko, Lehoczky, Jessica, Lui, Annie, Macdonald, Pendexter, Mauceli, Evan, Mikkelsen, Tarjei S., Naylor, Jerome W., Nicol, Robert, Nguyen, Cindy, Noguchi, Hideki, O'Leary, Sinead B., Piqani, Bruno, L Smith, Cherylyn, Talamas, Jessica A., Topham, Kerri, Totoki, Yasushi, Toyoda, Atsushi, Wain, Hester M., Young, Sarah K., Zeng, Qiandong, Zimmer, Andrew R., Fujiyama, Asao, Hattori, Masahira, Birren, Bruce W., Sakaki, Yoshiyuki, and Lander, Eric S.

Abstract

Author(s): Chad Nusbaum (corresponding author) [1]; Michael C. Zody [1]; Mark L. Borowsky [1]; Michael Kamal [1]; Chinnappa D. Kodira [1]; Todd D. Taylor [2]; Charles A. Whittaker [1, 8]; [...]

Published
2005
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37. Genome of Helicobacter pylori strain 908

Author

Devi, Singamaneni Haritha, Taylor, Todd D., Avasthi, Tiruvayipati Suma, Kondo, Shinji, Suzuki, Yutaka, Megraud, Francis, and Ahmed, Niyaz

Subjects
Bacterial genetics -- Research, Helicobacter pylori -- Genetic aspects, Genomes -- Research, Biological sciences
Abstract

Helicobacter pylori is a genetically diverse and coevolved pathogen inhabiting human gastric niches and leading to a spectrum of gastric diseases in susceptible populations. We describe the genome sequence of H. pylori 908, which was originally isolated from an African patient living in France who suffered with recrudescent duodenal ulcer disease. The strain was found to be phylogenetically related to H. pylori J99, and its comparative analysis revealed several specific genome features and novel insertion-deletion and substitution events. The genome sequence revealed several strain-specific deletions and/or gain of genes exclusively present in HP908 compared with different sequenced genomes already available in the public domain. Comparative and functional genomics of HP908 and its subclones will be important in understanding genomic plasticity and the capacity to colonize and persist in a changing host environment. doi: 10.1128/JB.01110-10

Published
2010

38. Complete genome sequence of the wild-type commensal Escherichia coli strain SE15, belonging to phylogenetic group B2

Author

Toh, Hidehiro, Oshima, Kenshiro, Toyoda, Atsushi, Ogura, Yoshitoshi, Ooka, Tadasuke, Sasamoto, Hiroyuki, Park, Sang-Hee, Iyoda, Sunao, Kurokawa, Ken, Morita, Hidetoshi, Itoh, Kikuji, Taylor, Todd D., Hayashi, Tetsuya, and Hattori, Masahira

Subjects
Escherichia coli -- Genetic aspects, Escherichia coli -- Research, Phylogenetic trees -- Research, Biological sciences
Abstract

Escherichia coli SE15 (O150:H5) is a human commensal bacterium recently isolated from feces of a healthy adult and classified into E. coli phylogenetic group B2, which includes the majority of extraintestinal pathogenic E. coli. Here, we report the finished and annotated genome sequence of this organism. doi:10.1128/JB.01543-09

Published
2010

39. Complete genome sequence of the probiotic Lactobacillus rhamnosus ATCC 53103

Author

Morita, Hidetoshi, Toh, Hidehiro, Oshima, Kenshiro, Murakami, Masaru, Taylor, Todd D., Igimi, Shizunobu, and Hattori, Masahira

Subjects
Genomes -- Identification and classification, Lactobacillus -- Genetic aspects, Bacterial genetics -- Research, Biological sciences
Abstract

Lactobacillus rhamnosus is a facultatively heterofermentative lactic acid bacterium and is frequently isolated from human gastrointestinal mucosa of healthy individuals. L. rhamnosus ATCC 53103, isolated from a healthy human intestinal flora, is one of the most widely used and well-documented probiotics. Here, we report the finished and annotated genome sequence of this organism. doi: 10.1128/JB.01287-09

Published
2009

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