Author Report for: El-Dorry HNo contact information in database for El-Dorry H
Nene V, Wortman JR, Lawson D, Haas B, Kodira C, Tu ZJ, Loftus B, Xi Z, Megy K and Severson DW <85 more author(s)> Nene V, Wortman JR, Lawson D, Haas B, Kodira C, Tu ZJ, Loftus B, Xi Z, Megy K, Grabherr M, Ren Q, Zdobnov EM, Lobo NF, Campbell KS, Brown SE, Bonaldo MF, Zhu J, Sinkins SP, Hogenkamp DG, Amedeo P, Arensburger P, Atkinson PW, Bidwell S, Biedler J, Birney E, Bruggner RV, Costas J, Coy MR, Crabtree J, Crawford M, Debruyn B, Decaprio D, Eiglmeier K, Eisenstadt E, El-Dorry H, Gelbart WM, Gomes SL, Hammond M, Hannick LI, Hogan JR, Holmes MH, Jaffe D, Johnston JS, Kennedy RC, Koo H, Kravitz S, Kriventseva EV, Kulp D, LaButti K, Lee E, Li S, Lovin DD, Mao C, Mauceli E, Menck CF, Miller JR, Montgomery P, Mori A, Nascimento AL, Naveira HF, Nusbaum C, O'Leary S, Orvis J, Pertea M, Quesneville H, Reidenbach KR, Rogers YH, Roth CW, Schneider JR, Schatz M, Shumway M, Stanke M, Stinson EO, Tubio JM, Vanzee JP, Verjovski-Almeida S, Werner D, White O, Wyder S, Zeng Q, Zhao Q, Zhao Y, Hill CA, Raikhel AS, Soares MB, Knudson DL, Lee NH, Galagan J, Salzberg SL, Paulsen IT, Dimopoulos G, Collins FH, Birren B, Fraser-Liggett CM, Severson DW (- 85) Ref: Science, 316:1718, 2007 : PubMed ESTHER: Nene_2007_Science_316_1718 PubMedSearch: Nene 2007 Science 316 1718 PubMedID: 17510324 Gene_locus related to this paper: aedae-ACHE, aedae-ACHE1, aedae-glita, aedae-q0iea6, aedae-q0iev6, aedae-q0ifn6, aedae-q0ifn8, aedae-q0ifn9, aedae-q0ifp0, aedae-q0ig41, aedae-q1dgl0, aedae-q1dh03, aedae-q1dh19, aedae-q1hqe6, aedae-Q8ITU8, aedae-Q8MMJ6, aedae-Q8T9V6, aedae-q16e91, aedae-q16f04, aedae-q16f25, aedae-q16f26, aedae-q16f28, aedae-q16f29, aedae-q16f30, aedae-q16gq5, aedae-q16iq5, aedae-q16je0, aedae-q16je1, aedae-q16je2, aedae-q16ks8, aedae-q16lf2, aedae-q16lv6, aedae-q16m61, aedae-q16mc1, aedae-q16mc6, aedae-q16mc7, aedae-q16md1, aedae-q16ms7, aedae-q16nk5, aedae-q16rl5, aedae-q16rz9, aedae-q16si8, aedae-q16t49, aedae-q16wf1, aedae-q16x18, aedae-q16xp8, aedae-q16xu6, aedae-q16xw5, aedae-q16xw6, aedae-q16y04, aedae-q16y05, aedae-q16y06, aedae-q16y07, aedae-q16y39, aedae-q16y40, aedae-q16yg4, aedae-q16z03, aedae-q17aa7, aedae-q17av1, aedae-q17av2, aedae-q17av3, aedae-q17av4, aedae-q17b28, aedae-q17b29, aedae-q17b30, aedae-q17b31, aedae-q17b32, aedae-q17bm3, aedae-q17bm4, aedae-q17bv7, aedae-q17c44, aedae-q17cz1, aedae-q17d32, aedae-q17g39, aedae-q17g40, aedae-q17g41, aedae-q17g42, aedae-q17g43, aedae-q17g44, aedae-q17gb8, aedae-q17gr3, aedae-q17if7, aedae-q17if9, aedae-q17ig1, aedae-q17ig2, aedae-q17is4, aedae-q17l09, aedae-q17m26, aedae-q17mg9, aedae-q17mv4, aedae-q17mv5, aedae-q17mv6, aedae-q17mv7, aedae-q17mw8, aedae-q17mw9, aedae-q17nw5, aedae-q17nx5, aedae-q17pa4, aedae-q17q69, aedae-q170k7, aedae-q171y4, aedae-q172e0, aedae-q176i8, aedae-q176j0, aedae-q177k1, aedae-q177k2, aedae-q177l9, aedae-j9hic3, aedae-q179r9, aedae-u483, aedae-j9hj23, aedae-q17d68, aedae-q177c7, aedae-q0ifp1, aedae-a0a1s4fx83, aedae-a0a1s4g2m0, aedae-q1hr49 Abstract We present a draft sequence of the genome of Aedes aegypti, the primary vector for yellow fever and dengue fever, which at approximately 1376 million base pairs is about 5 times the size of the genome of the malaria vector Anopheles gambiae. Nearly 50% of the Ae. aegypti genome consists of transposable elements. These contribute to a factor of approximately 4 to 6 increase in average gene length and in sizes of intergenic regions relative to An. gambiae and Drosophila melanogaster. Nonetheless, chromosomal synteny is generally maintained among all three insects, although conservation of orthologous gene order is higher (by a factor of approximately 2) between the mosquito species than between either of them and the fruit fly. An increase in genes encoding odorant binding, cytochrome P450, and cuticle domains relative to An. gambiae suggests that members of these protein families underpin some of the biological differences between the two mosquito species. Title: Comparative genomics of two Leptospira interrogans serovars reveals novel insights into physiology and pathogenesis Nascimento AL, Ko AI, Martins EA, Monteiro-Vitorello CB, Ho PL, Haake DA, Verjovski-Almeida S, Hartskeerl RA, Marques MV and Van Sluys MA <37 more author(s)> Nascimento AL, Ko AI, Martins EA, Monteiro-Vitorello CB, Ho PL, Haake DA, Verjovski-Almeida S, Hartskeerl RA, Marques MV, Oliveira MC, Menck CF, Leite LC, Carrer H, Coutinho LL, Degrave WM, Dellagostin OA, El-Dorry H, Ferro ES, Ferro MI, Furlan LR, Gamberini M, Giglioti EA, Goes-Neto A, Goldman GH, Goldman MH, Harakava R, Jeronimo SM, Junqueira-de-Azevedo IL, Kimura ET, Kuramae EE, Lemos EG, Lemos MV, Marino CL, Nunes LR, de Oliveira RC, Pereira GG, Reis MS, Schriefer A, Siqueira WJ, Sommer P, Tsai SM, Simpson AJ, Ferro JA, Camargo LE, Kitajima JP, Setubal JC, Van Sluys MA (- 37) Ref: Journal of Bacteriology, 186:2164, 2004 : PubMed ESTHER: Nascimento_2004_J.Bacteriol_186_2164 PubMedSearch: Nascimento 2004 J.Bacteriol 186 2164 PubMedID: 15028702 Gene_locus related to this paper: lepin-AXEA, lepin-ESTA, lepin-LA0357, lepin-LA0587, lepin-LA0932, lepin-LA1069, lepin-LA1345, lepin-LA1541, lepin-LA1861, lepin-LA1902, lepin-LA1936, lepin-LA1955, lepin-LA2034, lepin-LA2132, lepin-LA2501, lepin-LA2505, lepin-LA2526, lepin-LA2544, lepin-LA2857, lepin-LA2958, lepin-LA3100, lepin-LA3107, lepin-LA3147, lepin-LA3604, lepin-LA3661, lepin-LA3672, lepin-LA3788, lepin-LA3851, lepin-LA3897, lepin-LA3998, lepin-METX, lepin-q8f7a8, lepin-q72tt9 Abstract Leptospira species colonize a significant proportion of rodent populations worldwide and produce life-threatening infections in accidental hosts, including humans. Complete genome sequencing of Leptospira interrogans serovar Copenhageni and comparative analysis with the available Leptospira interrogans serovar Lai genome reveal that despite overall genetic similarity there are significant structural differences, including a large chromosomal inversion and extensive variation in the number and distribution of insertion sequence elements. Genome sequence analysis elucidates many of the novel aspects of leptospiral physiology relating to energy metabolism, oxygen tolerance, two-component signal transduction systems, and mechanisms of pathogenesis. A broad array of transcriptional regulation proteins and two new families of afimbrial adhesins which contribute to host tissue colonization in the early steps of infection were identified. Differences in genes involved in the biosynthesis of lipopolysaccharide O side chains between the Copenhageni and Lai serovars were identified, offering an important starting point for the elucidation of the organism's complex polysaccharide surface antigens. Differences in adhesins and in lipopolysaccharide might be associated with the adaptation of serovars Copenhageni and Lai to different animal hosts. Hundreds of genes encoding surface-exposed lipoproteins and transmembrane outer membrane proteins were identified as candidates for development of vaccines for the prevention of leptospirosis. Title: Comparative analyses of the complete genome sequences of Pierce's disease and citrus variegated chlorosis strains of Xylella fastidiosa Van Sluys MA, de Oliveira MC, Monteiro-Vitorello CB, Miyaki CY, Furlan LR, Camargo LE, da Silva AC, Moon DH, Takita MA and Kitajima JP <48 more author(s)> Van Sluys MA, de Oliveira MC, Monteiro-Vitorello CB, Miyaki CY, Furlan LR, Camargo LE, da Silva AC, Moon DH, Takita MA, Lemos EG, Machado MA, Ferro MI, da Silva FR, Goldman MH, Goldman GH, Lemos MV, El-Dorry H, Tsai SM, Carrer H, Carraro DM, de Oliveira RC, Nunes LR, Siqueira WJ, Coutinho LL, Kimura ET, Ferro ES, Harakava R, Kuramae EE, Marino CL, Giglioti E, Abreu IL, Alves LM, do Amaral AM, Baia GS, Blanco SR, Brito MS, Cannavan FS, Celestino AV, da Cunha AF, Fenille RC, Ferro JA, Formighieri EF, Kishi LT, Leoni SG, Oliveira AR, Rosa VE, Jr., Sassaki FT, Sena JA, de Souza AA, Truffi D, Tsukumo F, Yanai GM, Zaros LG, Civerolo EL, Simpson AJ, Almeida NF, Jr., Setubal JC, Kitajima JP (- 48) Ref: Journal of Bacteriology, 185:1018, 2003 : PubMed ESTHER: Van Sluys_2003_J.Bacteriol_185_1018 PubMedSearch: Van Sluys 2003 J.Bacteriol 185 1018 PubMedID: 12533478 Gene_locus related to this paper: xylfa-ACVB, xylfa-cxest, xylfa-metx, xylfa-PD1038, xylfa-PD1211, xylfa-PD1300, xylfa-PD1702, xylfa-PD2024, xylfa-pip, xylfa-XF0015, xylfa-XF0357, xylfa-XF0754, xylfa-XF0863, xylfa-XF1029, xylfa-XF1181, xylfa-XF1253, xylfa-XF1282, xylfa-XF1356, xylfa-XF1479, xylfa-XF1965, xylfa-XF2330, xylfa-XF2551 Abstract Xylella fastidiosa is a xylem-dwelling, insect-transmitted, gamma-proteobacterium that causes diseases in many plants, including grapevine, citrus, periwinkle, almond, oleander, and coffee. X. fastidiosa has an unusually broad host range, has an extensive geographical distribution throughout the American continent, and induces diverse disease phenotypes. Previous molecular analyses indicated three distinct groups of X. fastidiosa isolates that were expected to be genetically divergent. Here we report the genome sequence of X. fastidiosa (Temecula strain), isolated from a naturally infected grapevine with Pierce's disease (PD) in a wine-grape-growing region of California. Comparative analyses with a previously sequenced X. fastidiosa strain responsible for citrus variegated chlorosis (CVC) revealed that 98% of the PD X. fastidiosa Temecula genes are shared with the CVC X. fastidiosa strain 9a5c genes. Furthermore, the average amino acid identity of the open reading frames in the strains is 95.7%. Genomic differences are limited to phage-associated chromosomal rearrangements and deletions that also account for the strain-specific genes present in each genome. Genomic islands, one in each genome, were identified, and their presence in other X. fastidiosa strains was analyzed. We conclude that these two organisms have identical metabolic functions and are likely to use a common set of genes in plant colonization and pathogenesis, permitting convergence of functional genomic strategies. Title: Comparison of the genomes of two Xanthomonas pathogens with differing host specificities da Silva ACR, Ferro JA, Reinach FC, Farah CS, Furlan LR, Quaggio RB, Monteiro-Vitorello CB, Van Sluys MA, Almeida Jr NF and Kitajima JP <55 more author(s)> da Silva ACR, Ferro JA, Reinach FC, Farah CS, Furlan LR, Quaggio RB, Monteiro-Vitorello CB, Van Sluys MA, Almeida Jr NF, Alves LMC, do Amaral AM, Bertolini MC, Camargo LEA, Camarotte G, Cannavan F, Cardozo J, Chambergo F, Ciapina LP, Cicarelli RMB, Coutinho LL, Cursino-Santos JR, El-Dorry H, Faria JB, Ferreira AJS, Ferreira RCC, Ferro MIT, Formighieri EF, Franco MC, Greggio CC, Gruber A, Katsuyama AM, Kishi LT, Leite JrRP, Lemos EGM, Lemos MVF, Locali EC, Machado MA, Madeira AMBN, Martinez-Rossi NM, Martins EC, Meidanis J, Menck CFM, Miyaki CY, Moon DH, Moreira LM, Novo MTM, Okura VK, Oliveira MC, Oliveira VR, Pereira Jr HA, Rossi A, Sena JAD, Silva C, de Souza RF, Spinola LAF, Takita MA, Tamura RE, Teixeira EC, Tezza RID, Trindade dos Santos M, Truffi D, Tsai SM, White FF, Setubal JC, Kitajima JP (- 55) Ref: Nature, 417:459, 2002 : PubMed ESTHER: da Silva_2002_Nature_417_459 PubMedSearch: da Silva 2002 Nature 417 459 PubMedID: 12024217 Gene_locus related to this paper: xanac-q8phx9, xanac-q8pmm6, xanax-ACVB, xanax-BIOH, xanax-CATD, xanax-CPO, xanax-DHAA, xancp-OleB, xanax-ENTF2, xanax-estA1, xanax-GAA, xanax-META, xanax-METX, xanax-PCAD, xanax-PHBC, xanax-PTRB, xanax-Q8PMQ8, xanax-Q8PQP0, xanax-XAC0198, xanax-XAC0262, xanax-XAC0279, xanax-XAC0319, xanax-XAC0372, xanax-XAC0375, xanax-XAC0501, xanax-XAC0515, xanax-XAC0574, xanax-XAC0591, xanax-XAC0619, xanax-XAC0628, xanax-XAC0736, xanax-XAC0753, xanax-XAC0805, xanax-XAC0874, xanax-XAC0916, xanax-XAC1200, xanax-XAC1213, xanax-XAC1591, xanax-XAC1713, xanax-XAC1752, xanax-XAC2126, xanax-XAC2393, xanax-XAC2532, xanax-XAC2541, xanax-XAC2907, xanax-XAC2981, xanax-XAC2987, xanax-XAC2990, xanax-XAC3037, xanax-XAC3053, xanax-XAC3152, xanax-XAC3173, xanax-XAC3315, xanax-XAC3371, xanax-XAC3619, xanax-XAC3674, xanax-XAC3770, xanax-XAC3967, xanax-XAC3999, xanax-XAC4046, xanax-XAC4055, xanax-XAC4106, xanax-XAC4221, xanax-XAC4316, xanax-XYNB, xanca-acvB, xanca-BIOH, xanca-CATD, xanca-CPO, xanca-estA1, xanca-impep, xanca-META, xanca-METX, xanca-PCAD, xanca-PHBC, xanca-Q8PB04, xanca-W78, xanca-XCC0080, xanca-XCC0180, xanca-XCC0243, xanca-XCC0260, xanca-XCC0266, xanca-XCC0372, xanca-XCC0375, xanca-XCC0753, xanca-XCC0757, xanca-XCC0800, xanca-XCC0843, xanca-XCC1105, xanca-XCC1541, xanca-XCC1734, xanca-XCC2285, xanca-XCC2374, xanca-XCC2397, xanca-XCC2405, xanca-XCC2566, xanca-XCC2722, xanca-XCC2737, xanca-XCC2811, xanca-XCC2817, xanca-XCC2854, xanca-XCC2869, xanca-XCC2957, xanca-XCC3028, xanca-XCC3164, xanca-XCC3219, xanca-XCC3296, xanca-XCC3300, xanca-XCC3308, xanca-XCC3320, xanca-XCC3514, xanca-XCC3548, xanca-XCC3555, xanca-XCC3623, xanca-XCC3885, xanca-XCC3915, xanca-XCC3961, xanca-XCC3970, xanca-XCC4016, xanca-XCC4096, xanca-XCC4180, xanca-XYNB, xanca-XYNB2, xancb-b0rq23, xancp-q8pax3, xancp-y2094 Abstract The genus Xanthomonas is a diverse and economically important group of bacterial phytopathogens, belonging to the gamma-subdivision of the Proteobacteria. Xanthomonas axonopodis pv. citri (Xac) causes citrus canker, which affects most commercial citrus cultivars, resulting in significant losses worldwide. Symptoms include canker lesions, leading to abscission of fruit and leaves and general tree decline. Xanthomonas campestris pv. campestris (Xcc) causes black rot, which affects crucifers such as Brassica and Arabidopsis. Symptoms include marginal leaf chlorosis and darkening of vascular tissue, accompanied by extensive wilting and necrosis. Xanthomonas campestris pv. campestris is grown commercially to produce the exopolysaccharide xanthan gum, which is used as a viscosifying and stabilizing agent in many industries. Here we report and compare the complete genome sequences of Xac and Xcc. Their distinct disease phenotypes and host ranges belie a high degree of similarity at the genomic level. More than 80% of genes are shared, and gene order is conserved along most of their respective chromosomes. We identified several groups of strain-specific genes, and on the basis of these groups we propose mechanisms that may explain the differing host specificities and pathogenic processes. Title: The genome sequence of the plant pathogen Xylella fastidiosa. The Xylella fastidiosa Consortium of the Organization for Nucleotide Sequencing and Analysis Simpson AJ, Reinach FC, Arruda P, Abreu FA, Acencio M, Alvarenga R, Alves LM, Araya JE, Baia GS and Setubal JC <106 more author(s)> Simpson AJ, Reinach FC, Arruda P, Abreu FA, Acencio M, Alvarenga R, Alves LM, Araya JE, Baia GS, Baptista CS, Barros MH, Bonaccorsi ED, Bordin S, Bove JM, Briones MR, Bueno MR, Camargo AA, Camargo LE, Carraro DM, Carrer H, Colauto NB, Colombo C, Costa FF, Costa MC, Costa-Neto CM, Coutinho LL, Cristofani M, Dias-Neto E, Docena C, El-Dorry H, Facincani AP, Ferreira AJ, Ferreira VC, Ferro JA, Fraga JS, Franca SC, Franco MC, Frohme M, Furlan LR, Garnier M, Goldman GH, Goldman MH, Gomes SL, Gruber A, Ho PL, Hoheisel JD, Junqueira ML, Kemper EL, Kitajima JP, Krieger JE, Kuramae EE, Laigret F, Lambais MR, Leite LC, Lemos EG, Lemos MV, Lopes SA, Lopes CR, Machado JA, Machado MA, Madeira AM, Madeira HM, Marino CL, Marques MV, Martins EA, Martins EM, Matsukuma AY, Menck CF, Miracca EC, Miyaki CY, Monteriro-Vitorello CB, Moon DH, Nagai MA, Nascimento AL, Netto LE, Nhani A, Jr., Nobrega FG, Nunes LR, Oliveira MA, de Oliveira MC, de Oliveira RC, Palmieri DA, Paris A, Peixoto BR, Pereira GA, Pereira HA, Jr., Pesquero JB, Quaggio RB, Roberto PG, Rodrigues V, de MRAJ, de Rosa VE, Jr., de Sa RG, Santelli RV, Sawasaki HE, da Silva AC, da Silva AM, da Silva FR, da Silva WA, Jr., da Silveira JF, Silvestri ML, Siqueira WJ, de Souza AA, de Souza AP, Terenzi MF, Truffi D, Tsai SM, Tsuhako MH, Vallada H, Van Sluys MA, Verjovski-Almeida S, Vettore AL, Zago MA, Zatz M, Meidanis J, Setubal JC (- 106) Ref: Nature, 406:151, 2000 : PubMed ESTHER: Simpson_2000_Nature_406_151 PubMedSearch: Simpson 2000 Nature 406 151 PubMedID: 10910347 Gene_locus related to this paper: xylfa-ACVB, xylfa-cxest, xylfa-metx, xylfa-PD2024, xylfa-pip, xylfa-q9pdj5, xylfa-XF0015, xylfa-XF0357, xylfa-XF0358, xylfa-XF0754, xylfa-XF0863, xylfa-XF0992, xylfa-XF1029, xylfa-XF1181, xylfa-XF1253, xylfa-XF1282, xylfa-XF1356, xylfa-XF1479, xylfa-XF1743, xylfa-XF1745, xylfa-XF1750, xylfa-XF1829, xylfa-XF1965, xylfa-XF2151, xylfa-XF2260, xylfa-XF2330, xylfa-XF2551, xylfa-XFA0032 Abstract Xylella fastidiosa is a fastidious, xylem-limited bacterium that causes a range of economically important plant diseases. Here we report the complete genome sequence of X. fastidiosa clone 9a5c, which causes citrus variegated chlorosis--a serious disease of orange trees. The genome comprises a 52.7% GC-rich 2,679,305-base-pair (bp) circular chromosome and two plasmids of 51,158 bp and 1,285 bp. We can assign putative functions to 47% of the 2,904 predicted coding regions. Efficient metabolic functions are predicted, with sugars as the principal energy and carbon source, supporting existence in the nutrient-poor xylem sap. The mechanisms associated with pathogenicity and virulence involve toxins, antibiotics and ion sequestration systems, as well as bacterium-bacterium and bacterium-host interactions mediated by a range of proteins. Orthologues of some of these proteins have only been identified in animal and human pathogens; their presence in X. fastidiosa indicates that the molecular basis for bacterial pathogenicity is both conserved and independent of host. At least 83 genes are bacteriophage-derived and include virulence-associated genes from other bacteria, providing direct evidence of phage-mediated horizontal gene transfer. | |||||||
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