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  • Алла Львовна Лапидус
2012

Permanent draft genome sequence of the gliding predator Saprospira grandis strain Sa g1 (= HR1)

Mavromatis, K., Chertkov, O., Lapidus, A., Nolan, M., Lucas, S., Tice, H., Del Rio, T. G., Cheng, J. F., Han, C., Tapia, R., Bruce, D., Goodwin, L. A., Pitluck, S., Huntemann, M., Liolios, K., Pagani, I., Ivanova, N., Mikhailova, N., Pati, A., Chen, A. & 14 others, Palaniappan, K., Land, M., Brambilla, E. M., Rohde, M., Spring, S., Göker, M., Detter, J. C., Bristow, J., Eisen, J. A., Markowitz, V., Hugenholtz, P., Kyrpides, N. C., Klenk, H. P. & Woyke, T., 12 Jul 2012, In : Standards in Genomic Sciences. 6, 2, p. 210-219 10 p.

Research output

1 Citation (Scopus)

Complete genome sequence of the termite hindgut bacterium Spirochaeta coccoides type strain (SPN1T), reclassification in the genus Sphaerochaeta as Sphaerochaeta coccoides comb. nov. and emendations of the family Spirochaetaceae and the genus Sphaerochaeta

Abt, B., Han, C., Scheuner, C., Lu, M., Lapidus, A., Nolan, M., Lucas, S., Hammon, N., Deshpande, S., Cheng, J. F., Tapia, R., Goodwin, L. A., Pitluck, S., Liolios, K., Pagani, I., Ivanova, N., Mavromatis, K., Mikhailova, N., Huntemann, M., Pati, A. & 17 others, Chen, A., Palaniappan, K., Land, M., Hauser, L., Brambilla, E. M., Rohde, M., Spring, S., Gronow, S., Göker, M., Woyke, T., Bristow, J., Eisen, J. A., Markowitz, V., Hugenholtz, P., Kyrpides, N. C., Klenk, H. P. & Detter, J. C., 12 Jul 2012, In : Standards in Genomic Sciences. 6, 2, p. 194-209 16 p.

Research output

37 Citations (Scopus)

Genome sequence of the orange-pigmented seawater bacterium Owenweeksia hongkongensis type strain (UST20020801T)

Riedel, T., Held, B., Nolan, M., Lucas, S., Lapidus, A., Tice, H., Del Rio, T. G., Cheng, J. F., Han, C., Tapia, R., Goodwin, L. A., Pitluck, S., Liolios, K., Mavromatis, K., Pagani, I., Ivanova, N., Mikhailova, N., Pati, A., Chen, A., Palaniappan, K. & 11 others, Rohde, M., Tindall, B. J., Detter, J. C., Göker, M., Woyke, T., Bristow, J., Eisen, J. A., Markowitz, V., Hugenholtz, P., Klenk, H. P. & Kyrpides, N. C., 7 Nov 2012, In : Standards in Genomic Sciences. 7, 1, p. 120-130 11 p.

Research output

9 Citations (Scopus)
2011

Complete genome sequence of the filamentous gliding predatory bacterium Herpetosiphon aurantiacus type strain (114-95T)

Kiss, H., Nett, M., Domin, N., Martin, K., Maresca, J. A., Copeland, A., Lapidus, A., Lucas, S., Berry, K. W., del Rio, T. G., Dalin, E., Tice, H., Pitluck, S., Richardson, P., Bruce, D., Goodwin, L., Han, C., Detter, J. C., Schmutz, J., Brettin, T. & 7 others, Land, M., Hauser, L., Kyrpides, N. C., Göker, M., Woyke, T., Klenk, H. P. & Bryant, D. A., 1 Jan 2011, In : Standards in Genomic Sciences. 5, 3, p. 356-370 15 p.

Research output

Open Access
32 Citations (Scopus)

Non-contiguous finished genome sequence of the opportunistic oral pathogen Prevotella multisaccharivorax type strain (PPPA20 t)

Pati, A., Gronow, S., Lu, M., Lapidus, A., Nolan, M., Lucas, S., Hammon, N., Deshpande, S., Cheng, J. F., Tapia, R., Han, C., Goodwin, L., Pitluck, S., Liolios, K., Pagani, I., Mavromatis, K., Huntemann, M., Chen, A., Palaniappan, K., Land, M. & 12 others, Hauser, L., Detter, J. C., Brambilla, E. M., Rohde, M., Göker, M., Woyke, T., Bristow, J., Eisen, J. A., Markowitz, V., Hugenholtz, P., Kyrpides, N. C. & Klenk, H. P., 28 Oct 2011, In : Standards in Genomic Sciences. 5, 1, p. 41-49 9 p.

Research output

Open Access
1 Citation (Scopus)

Complete genome sequence of oceanithermus profundus type strain (506 T)

Pati, A., Zhang, X., Lapidus, A., Nolan, M., Lucas, S., del Rio, T. G., Tice, H., Cheng, J. F., Tapia, R., Han, C., Goodwin, L., Pitluck, S., Liolios, K., Pagani, I., Mavromatis, K., Chen, A., Palaniappan, K., Hauser, L., Jeffries, C. D., Brambilla, E. M. & 16 others, Röhl, A., Mwirichia, R., Rohde, M., Tindall, B. J., Sikorski, J., Wirth, R., Göker, M., Woyke, T., Detter, J. C., Bristow, J., Eisen, J. A., Markowitz, V., Hugenholtz, P., Kyrpides, N. C., Klenk, H. P. & Land, M., 11 Oct 2011, In : Standards in Genomic Sciences. 4, 2, p. 210-220 11 p.

Research output

Open Access
3 Citations (Scopus)
2013

Genome sequence of Frateuria aurantia type strain (Kondô 67T), a xanthomonade isolated from Lilium auratium Lindl.

Anderson, I., Teshima, H., Nolan, M., Lapidus, A., Tice, H., Del Rio, T. G., Cheng, J-F., Han, C., Tapia, R., Goodwin, L. A., Pitluck, S., Liolios, K., Mavromatis, K., Pagani, I., Ivanova, N., Mikhailova, N., Pati, A., Chen, A., Palaniappan, K., Land, M. & 11 others, Rohde, M., Lang, E., Detter, J. C., Göker, M., Woyke, T., Bristow, J., Eisen, J. A., Markowitz, V., Hugenholtz, P., Kyrpides, N. C. & Klenk, H-P., 2013, In : Standards in Genomic Sciences. 9, 1, p. 83-92

Research output

2011

Genome sequence of Chthoniobacter flavus Ellin428, an aerobic heterotrophic soil bacterium

Kant, R., van Passe, M. W. J., Palva, A., Lucas, S., Lapidus, A., del Rio, T. G., Dalin, E., Tice, H., Bruce, D., Goodwin, L., Pitluck, S., Larimer, F. W., Land, M. L., Hauser, L., Sangwan, P., de Vos, W. M., Janssen, P. H. & Smidt, H., 1 Jun 2011, In : Journal of Bacteriology. 193, 11, p. 2902-2903 2 p.

Research output

28 Citations (Scopus)

Complete genome sequence of Cellulophaga lytica type strain (LIM-21 T)

Pati, A., Abt, B., Teshima, H., Nolan, M., Lapidus, A., Lucas, S., Hammon, N., Deshpande, S., Cheng, J. F., Tapia, R., Han, C., Goodwin, L., Pitluck, S., Liolios, K., Pagani, I., Mavromatis, K., Ovchinikova, G., Chen, A., Palaniappan, K., Land, M. & 15 others, Hauser, L., Jeffries, C. D., Detter, J. C., Brambilla, E. M., Kannan, K. P., Rohde, M. F., Spring, S., Göker, M., Woyke, T., Bristow, J., Ei-Sen, J. A., Markowitz, V., Hugenholtz, P., Kyrpides, N. C. & Klenk, H. P., 11 Oct 2011, In : Standards in Genomic Sciences. 4, 2, p. 221-232 12 p.

Research output

21 Citations (Scopus)

Soil microbe Dechloromonas aromatica Str. RCB metabolic analysis

Salinero, K. K., Keller, K., Feil, W. S., Feil, H., Trong, S., Di Bartolo, G. & Lapidus, A., 15 Dec 2011, Recent Advances in Microbiology. Apple Academic Press, p. 120-147 28 p.

Research outputpeer-review

Complete genome sequence of bacteroides salanitronis type strain (BL78 T)

Gronow, S., Held, B., Lucas, S., Lapidus, A., del Rio, T. G., Nolan, M., Tice, H., Deshpande, S., Cheng, J. F., Pitluck, S., Liolios, K., Pagani, I., Mavromatis, K., Pati, A., Tapia, R., Han, C., Goodwin, L., Chen, A., Palaniappan, K., Land, M. & 14 others, Hauser, L., Chang, Y. J., Jeffries, C. D., Brambilla, E. M., Rohde, M., Göker, M., Detter, J. C., Woyke, T., Bristow, J., Markowitz, V., Hugenholtz, P., Kyrpides, N. C., Klenk, H. P. & Eisen, J. A., 11 Oct 2011, In : Standards in Genomic Sciences. 4, 2, p. 191-199 9 p.

Research output

Open Access
6 Citations (Scopus)
2019

Draft Genome Sequence of Mn(II)-Oxidizing Bacterium Oxalobacteraceae sp. Strain AB_14

Bushman, T. J., Akob, D. M., Bohu, T., Beyer, A., Woyke, T., Shapiro, N., Lapidus, A., Klenk, H-P. & Kuesel, K., 24 Oct 2019, In : Microbiology resource announcements. 8, 43, e01024-19.

Research output

2011

Complete genome sequence of the thermophilic, hydrogen-oxidizing Bacillus tusciae type strain (T2 T) and reclassification in the new genus, Kyrpidia gen. nov. as Kyrpidia tusciae comb. nov. and emendation of the family alicyclobacillaceae da Costa and Rainey, 2010

Klenk, H. P., Lapidus, A., Chertkov, O., Copeland, A., del Rio, G. T., Nolan, M., Lucas, S., Chen, F., Tice, H., Cheng, J. F., Han, C., Bruce, D., Goodwin, L., Pitluck, S., Pati, A., Mavromatis, K., Daum, C., Chen, A., Palaniappan, K., Chang, Y. J. & 12 others, Land, M., Hauser, L., Jeffries, C. D., Detter, J. C., Rohde, M., Abt, B., Pukall, R., Göker, M., Bristow, J., Markowitz, V., Hugenholtz, P. & Eisen, J. A., 31 Oct 2011, In : Standards in Genomic Sciences. 5, 1

Research output

Open Access
28 Citations (Scopus)

Complete genome sequence of Hydrogenobacter thermophilus type strain (TK-6 T)

Zeytun, A., Sikorski, J., Nolan, M., Lapidus, A., Lucas, S., Han, J., Tice, H., Cheng, J. F., Tapia, R., Goodwin, L., Pitluck, S., Liolios, K., Mavromatis, K., Ovchinnikova, G., Pati, A., Chen, A., Palaniappan, K., Ngatchou-Djao, O. D., Land, M., Hauser, L. & 15 others, Jeffries, C. D., Han, C., Detter, J. C., Übler, S., Rohde, M., Tindall, B. J., Göker, M., Wirth, R., Woyke, T., Bristow, J., Eisen, J. A., Markowitz, V., Hugenholtz, P., Klenk, H. P. & Kyrpides, N. C., 11 Oct 2011, In : Standards in Genomic Sciences. 4, 2, p. 131-143 13 p.

Research output

Open Access
5 Citations (Scopus)
2015

High quality draft genome sequence of leucobacter chironomi strain MM2LB<sup>T</sup> (DSM 19883<sup>T</sup>) isolated from a chironomus sp. egg mass

Laviad, S., Lapidus, A., Copeland, A., Reddy, T. B. K., Huntemann, M., Pati, A., Ivanova, N. N., Markowitz, V. M., Pukall, R., Klenk, H-P., Woyke, T., Kyrpides, N. C. & Halpern, M., 2015, In : Standards in Genomic Sciences. MAY2015, 7 p.

Research output

2013

Genome sequence of the thermophilic fresh-water bacterium Spirochaeta caldaria type strain (H1(T)), reclassification of Spirochaeta caldaria, Spirochaeta stenostrepta, and Spirochaeta zuelzerae in the genus Treponema as Treponema caldaria comb. nov., Treponema stenostrepta comb. nov., and Treponema zuelzerae comb. nov., and emendation of the genus Treponema

Abt, B., Göker, M., Scheuner, C., Han, C., Lu, M., Misra, M., Lapidus, A., Nolan, M., Lucas, S., Hammon, N., Deshpande, S., Cheng, JF., Tapia, R., Goodwin, LA., Pitluck, S., Liolios, K., Pagani, I., Ivanova, N., Mavromatis, K., Mikhailova, N. & 18 others, Huntemann, M., Pati, A., Chen, A., Palaniappan, K., Land, M., Hauser, L., Jeffries, CD., Rohde, M., Spring, S., Gronow, S., Detter, JC., Bristow, J., Eisen, JA., Markowitz, V., Hugenholtz, P., Kyrpides, NC., Woyke, T. & Klenk, HP., 2013, In : Standards in Genomic Sciences. 8, 1, p. 88–105

Research output

21 Citations (Scopus)
2014

High quality draft genome sequence of Olivibacter sitiensis type strain (AW-6(T)), a diphenol degrader with genes involved in the catechol pathway

Ntougias, S., Lapidus, A., Han, J., Mavromatis, K., Pati, A., Chen, A., Klenk, H-P., Woyke, T., Fasseas, C., Kyrpides, N. C. & Zervakis, G. I., 2014, In : Standards in Genomic Sciences. 9, 3, p. 783-93 11 p.

Research output

5 Citations (Scopus)
2017

Draft genome sequence of Dethiobacter alkaliphilus strain AHT1T, a gram-positive sulfidogenic polyextremophile

Melton, E. D., Sorokin, D. Y., Overmars, L., Lapidus, A. L., Pillay, M., Ivanova, N., del Rio, T. G., Kyrpides, N. C., Woyke, T. & Muyzer, G., 21 Sep 2017, In : Standards in Genomic Sciences. 12, 1, 57.

Research output

Open Access
6 Citations (Scopus)
2015

Correction: The Genomes of the Fungal Plant Pathogens Cladosporium fulvum and Dothistroma septosporum Reveal Adaptation to Different Hosts and Lifestyles But Also Signatures of Common Ancestry [PLoS Genet, 11(12), (2015)]

de Wit, P. J. G. M., van der Burgt, A., Ökmen, B., Stergiopoulos, I., Abd-Elsalam, K. A., Aerts, A. L., Bahkali, A. H., Beenen, H. G., Chettri, P., Cox, M. P., Datema, E., de Vries, R. P., Dhillon, B., Ganley, A. R., Griffiths, S. A., Guo, Y., Hamelin, R. C., Henrissat, B., Shahjahan Kabir, M., Karimi Jashni, M. & 19 others, Kema, G., Klaubauf, S., Lapidus, A., Levasseur, A., Lindquist, E., Mehrabi, R., Ohm, R. A., Owen, T. J., Salamov, A., Schwelm, A., Schijlen, E., Sun, H., van den Burg, H. A., van Ham, R. C. H. J., Zhang, S., Goodwin, S. B., Grigoriev, I. V., Collemare, J. & Bradshaw, R. E., 22 Dec 2015, In : PLoS Genetics. 11, 12, e1005775.

Research output

1 Citation (Scopus)
2012

Complete genome sequence of the sulfate-reducing firmicute Desulfotomaculum ruminis type strain (DLT)

Spring, S., Visser, M., Lu, M., Copeland, A., Lapidus, A., Lucas, S., Cheng, J. F., Han, C., Tapia, R., Goodwin, L. A., Pitluck, S., Ivanova, N., Land, M., Hauser, L., Larimer, F., Rohde, M., Göker, M., Detter, J. C., Kyrpides, N. C., Woyke, T. & 9 others, Schaap, P. J., Plugge, C. M., Muyzer, G., Kuever, J., Pereira, I. A. C., Parshina, S. N., Bernier-Latmani, R., Stams, A. J. M. & Klenk, H. P., 1 Dec 2012, In : Standards in Genomic Sciences. 7, 2, p. 304-319 16 p.

Research output

13 Citations (Scopus)
2011

Complete genome sequence of Nitratifractor salsuginis type strain (E9I37-1 T)

Anderson, I., Sikorski, J., Zeytun, A., Nolan, M., Lapidus, A., Lucas, S., Hammon, N., Deshpande, S., Cheng, J. F., Tapia, R., Han, C., Goodwin, L., Pitluck, S., Liolios, K., Pagani, I., Huntemann, M., Mavromatis, K., Ovchinikova, G., Pati, A., Chen, A. & 16 others, Palaniappan, K., Land, M., Hauser, L., Brambilla, E. M., Ngatchou-Djao, O. D., Rohde, M., Tindall, B. J., Göker, M., Detter, J. C., Woyke, T., Bristow, J., Eisen, J. A., Markowitz, V., Hugenholtz, P., Klenk, H. P. & Kyrpides, N. C., 5 Oct 2011, In : Standards in Genomic Sciences. 4, 3, p. 322-330 9 p.

Research output

8 Citations (Scopus)
2012

Genome sequence of the soil bacterium Saccharomonospora azurea type strain (NA-128T)

Klenk, H. P., Held, B., Lucas, S., Lapidus, A., Copeland, A., Hammon, N., Pitluck, S., Goodwin, L. A., Han, C., Tapia, R., Brambilla, E. M., Pötter, G., Land, M., Ivanova, N., Rohde, M., Göker, M., Detter, J. C., Kyrpides, N. C. & Woyke, T., 12 Jul 2012, In : Standards in Genomic Sciences. 6, 2, p. 220-229 10 p.

Research output

5 Citations (Scopus)
2011

Complete genome sequence of Hirschia baltica type strain (IFAM 1418 T)

Chertkov, O., Brown, P. J., Kysela, D. T., de Pedro, M. A., Lucas, S., Copeland, A., Lapidus, A., del Rio, T. G., Tice, H., Bruce, D., Goodwin, L., Pitluck, S., Detter, J. C., Han, C., Larimer, F., Chang, Y. J., Jeffries, C. D., Land, M., Hauser, L., Kyrpides, N. C. & 5 others, Ovchinnikova, G., Tindall, B. J., Göker, M., Klenk, H. P. & Brun, Y. V., 1 Dec 2011, In : Standards in Genomic Sciences. 5, 3, p. 287-297 11 p.

Research output

6 Citations (Scopus)
2012

Genome sequence of the moderately thermophilic, amino-acid-degrading and sulfur-reducing bacterium Thermovirga lienii type strain (Cas60314T)

Göker, M., Saunders, E., Lapidus, A., Nolan, M., Lucas, S., Hammon, N., Deshpande, S., Cheng, J. F., Han, C., Tapia, R., Goodwin, L. A., Pitluck, S., Liolios, K., Mavromatis, K., Pagani, I., Ivanova, N., Mikhailova, N., Pati, A., Chen, A., Palaniappan, K. & 14 others, Land, M., Chang, Y. J., Jeffries, C. D., Brambilla, E. M., Rohde, M., Spring, S., Detter, J. C., Woyke, T., Bristow, J., Eisen, J. A., Markowitz, V., Hugenholtz, P., Kyrpides, N. C. & Klenk, H. P., 12 Jul 2012, In : Standards in Genomic Sciences. 6, 2, p. 230-239 10 p.

Research output

16 Citations (Scopus)
2011

Complete genome sequence of Syntrophobotulus glycolicus type strain (FlGlyR T)

Han, C., Mwirichia, R., Chertkov, O., Held, B., Lapidus, A., Nolan, M., Lucas, S., Hammon, N., Deshpande, S., Cheng, J. F., Tapia, R., Goodwin, L., Pitluck, S., Huntemann, M., Liolios, K., Pagani, I., Mavromatis, K., Ovchinikova, G., Pati, A., Chen, A. & 16 others, Palaniappan, K., Land, M., Hauser, L., Brambilla, E. M., Rohde, M., Spring, S., Sikorski, J., Göker, M., Woyke, T., Bristow, J., Eisen, J. A., Markowitz, V., Hugenholtz, P., Kyrpides, N. C., Klenk, H. P. & Detter, J. C., 5 Oct 2011, In : Standards in Genomic Sciences. 4, 3, p. 371-380 10 p.

Research output

6 Citations (Scopus)

Complete genome sequence of "Thioalkalivibrio sulfidophilus" HL-EbGr7

Muyzer, G., Sorokin, D. Y., Mavromatis, K., Lapidus, A., Clum, A., Pati, A., D'Haeseleer, P., Woyke, T. & Kyrpides, N. C., 5 Oct 2011, In : Standards in Genomic Sciences. 4, 1, p. 23-35 13 p.

Research output

38 Citations (Scopus)

Complete genome sequence of Tolumonas auensis type strain (TA 4T)

Chertkov, O., Copeland, A., Lucas, S., Lapidus, A., Berry, K. W., Detter, J. C., del Rio, T. G., Hammon, N., Dalin, E., Tice, H., Pitluck, S., Richardson, P., Bruce, D., Goodwin, L., Han, C., Tapia, R., Saunders, E., Schmutz, J., Brettin, T., Larimer, F. & 9 others, Land, M., Hauser, L., Spring, S., Rohde, M., Kyrpides, N. C., Göker, M., Beller, H. R., Klenk, H. P. & Woyke, T., 31 Oct 2011, In : Standards in Genomic Sciences. 5, 1, p. 112-120 9 p.

Research output

2 Citations (Scopus)

Complete genome sequence of the cellulolytic thermophile Clostridium thermocellum DSM1313

Feinberg, L., Foden, J., Barrett, T., Davenport, K. W., Bruce, D., Detter, C., Tapia, R., Han, C., Lapidus, A., Lucas, S., Cheng, J. F., Pitluck, S., Woyke, T., Ivanova, N., Mikhailova, N., Land, M., Hauser, L., Argyros, D. A., Goodwin, L., Hogsett, D. & 1 others, Caiazza, N., 1 Jun 2011, In : Journal of Bacteriology. 193, 11, p. 2906-2907 2 p.

Research output

55 Citations (Scopus)
2014

ExSPAnder: a universal repeat resolver for DNA fragment assembly

Prjibelski, A. D., Vasilinetc, I., Bankevich, A., Gurevich, A., Krivosheeva, T., Nurk, S., Pham, S., Korobeynikov, A., Lapidus, A. & Pevzner, P. A., 2014, In : Bioinformatics. 30, 12, p. I293-I301

Research output

53 Citations (Scopus)
2016

Permanent draft genome sequence of Desulfurococcus mobilis type strain DSM 2161, a thermoacidophilic sulfur-reducing crenarchaeon isolated from acidic hot springs of Hveravellir, Iceland

Susanti, D., Johnson, E. F., Lapidus, A., Han, J., Reddy, T. B. K., Pilay, M., Ivanova, N. N., Markowitz, V. M., Woyke, T., Kyrpides, N. C. & Mukhopadhyay, B., 2016, In : Standards in Genomic Sciences. 11, 3, 3.

Research output

Open Access
1 Citation (Scopus)
2017

Permanent draft genome sequence of Desulfurococcus amylolyticus strain Z-533T, a peptide and starch degrader isolated from thermal springs in the Kamchatka Peninsula and Kunashir Island, Russia

Susanti, D., Johnson, E. F., Lapidus, A., Han, J., Reddy, T. B. K., Mukherjee, S., Pillay, M., Perevalova, A. A., Ivanova, N. N., Woyke, T., Kyrpides, N. C. & Mukhopadhyay, B., 1 Apr 2017, In : Genome Announcements. 5, 15, e0007817.

Research output

Open Access
2 Citations (Scopus)
2015

High quality draft genome sequence of Bacteroides barnesiae type strain BL2<sup>T</sup>(DSM 18169<sup>T</sup>) from chicken caecum

Sakamoto, M., Lapidus, A. L., Han, J., Trong, S., Haynes, M., Reddy, T. B. K., Mikhailova, N., Huntemann, M., Pati, A., Ivanova, N. N., Pukall, R., Markowitz, V. M., Woyke, T., Klenk, H-P., Kyrpides, N. C. & Ohkuma, M., 2015, In : Standards in Genomic Sciences. AUGUST2015, 6 p.

Research output

High-quality permanent draft genome sequence of the extremely osmotolerant diphenol degrading bacterium Halotalea alkalilenta AW-7<sup>T</sup>, and emended description of the genus Halotalea

Ntougias, S., Lapidus, A., Copeland, A., Reddy, T. B. K., Pati, A., Ivanova, N. N., Markowitz, V. M., Klenk, H-P., Woyke, T., Fasseas, C., Kyrpides, N. C. & Zervakis, G. I., 2015, In : Standards in Genomic Sciences. AUGUST2015, 8 p.

Research output

2012

The Fast Changing Landscape of Sequencing Technologies and Their Impact on Microbial Genome Assemblies and Annotation

Mavromatis, K., Land, ML., Brettin, TS., Quest, DJ., Copeland, A., Clum, A., Goodwin, L., Woyke, T., Lapidus, A., Klenk, HP., Cottingham, RW. & Kyrpides, NC., 2012, In : PLoS ONE. 7, 12, p. e48837

Research output

111 Citations (Scopus)
2013

Complete genome sequence of the moderate thermophile Anaerobaculum mobile type strain (NGAT)

Mavromatis, K., Stackebrandt, E., Held, B., Lapidus, A., Nolan, M., Lucas, S., Hammon, N., Deshpande, S., Cheng, JF., Tapia, R., Goodwin, LA., Pitluck, S., Liolios, K., Pagani, I., Ivanova, N., Mikhailova, N., Huntemann, M., Pati, A., Chen, A., Palaniappan, K. & 12 others, Land, M., Rohde, M., Spring, S., Göker, M., Woyke, T., Detter, JC., Bristow, J., Eisen, JA., Markowitz, V., Hugenholtz, P., Klenk, HP. & Kyrpides, NC., 2013, In : Standards in Genomic Sciences. 8, 1, p. 47-57

Research output

7 Citations (Scopus)
2016

Transposable Elements versus the Fungal Genome: Impact on Whole-Genome Architecture and Transcriptional Profiles

Castanera, R. L., López-Varas, L., Borgognone, A., Labutti, K., Lapidus, A., Schmutz, J., Grimwood, J., Pérez, G. M., Pisabarro, A. G., Grigoriev, I. V., Stajich, J. E. & Ram rez, L. A., 1 Jun 2016, In : PLoS Genetics. 12, 6, e1006108.

Research output

58 Citations (Scopus)
2011

Complete genome sequence and updated annotation of Desulfovibrio alaskensis G20

Hauser, L. J., Land, M. L., Brown, S. D., Larimer, F., Keller, K. L., Rapp-Giles, B. J., Price, M. N., Lin, M., Bruce, D. C., Detter, J. C., Tapia, R., Han, C. S., Goodwin, L. A., Cheng, J. F., Pitluck, S., Copeland, A., Lucas, S., Nolan, M., Lapidus, A. L., Palumbo, A. V. & 1 others, Wall, J. D., 1 Aug 2011, In : Journal of Bacteriology. 193, 16, p. 4268-4269 2 p.

Research output

37 Citations (Scopus)
2016

High quality permanent draft genome sequence of Phaseolibacter flectens ATCC 12775(T), a plant pathogen of French bean pods

Aizenberg-Gershtein, Y., Izhaki, I., Lapidus, A., Copeland, A., Reddy, T. B. K., Huntemann, M., Pillay, M., Markowitz, V., Goeker, M., Woyke, T., Klenk, H-P., Kyrpides, N. C. & Halpern, M., 2016, In : Standards in Genomic Sciences. 11, 7 p.

Research output

2014

Genomic encyclopedia of bacteria and archaea: sequencing a myriad of type strains

Kyrpides, N. C., Hugenholtz, P., Eisen, J. A., Woyke, T., Göker, M., Parker, C. T., Amann, R., Beck, B. J., Chain, P. S. G., Chun, J., Colwell, R. R., Danchin, A., Dawyndt, P., Dedeurwaerdere, T., DeLong, E. F., Detter, J. C., De Vos, P., Donohue, T. J., Dong, X-Z., Ehrlich, D. S. & 44 others, Fraser, C., Gibbs, R., Gilbert, J., Gilna, P., Glöckner, F. O., Jansson, J. K., Keasling, J. D., Knight, R., Labeda, D., Lapidus, A., Lee, J-S., Li, W-J., Ma, J., Markowitz, V., Moore, E. R. B., Morrison, M., Meyer, F., Nelson, K. E., Ohkuma, M., Ouzounis, C. A., Pace, N., Parkhill, J., Qin, N., Rossello-Mora, R., Sikorski, J., Smith, D., Sogin, M., Stevens, R., Stingl, U., Suzuki, K-I., Taylor, D., Tiedje, J. M., Tindall, B., Wagner, M., Weinstock, G., Weissenbach, J., White, O., Wang, J., Zhang, L., Zhou, Y-G., Field, D., Whitman, W. B., Garrity, G. M. & Klenk, H-P., 2014, In : PLoS Biology. 12, 8, p. 1-7

Research output

121 Citations (Scopus)
2013

Genome sequence of Phaeobacter daeponensis type strain (DSM 23529T), a facultatively anaerobic bacterium isolated from marine sediment, and emendation of Phaeobacter daeponensis

Dogs, M., Teshima, H., Petersen, J., Fiebig, A., Chertkov, O., Dalingault, H., Chen, A., Pati, A., Goodwin, L. A., Chain, P., Detter, J. C., Ivanova, N., Lapidus, A., Rohde, M., Gronow, S., Kyrpides, N. C., Woyke, T., Simon, M., Göker, M., Klenk, H. P. & 1 others, Brinkhoff, T., 11 Nov 2013, In : Standards in Genomic Sciences. 9, 1, p. 142-159 18 p.

Research output

11 Citations (Scopus)
2011

Complete genome sequence of the aerobic marine methanotroph Methylomonas methanica MC09

Boden, R., Cunliffe, M., Scanlan, J., Moussard, H., Kits, K. D., Klotz, M. G., Jetten, M. S. M., Vuilleumier, S., Han, J., Peters, L., Teshima, H., Tapia, R., Kyrpides, N., Pagani, I., Cheng, J. F., Goodwin, L., Han, C., Hauser, L., Land, M. L., Lapidus, A. & 5 others, Lucas, S., Pitluck, S., Woyke, T., Stein, L. & Murrell, J. C., 1 Dec 2011, In : Journal of Bacteriology. 193, 24, p. 7001-7002 2 p.

Research output

Open Access
43 Citations (Scopus)
2012

CD45-deficient severe combined immunodeficiency caused by uniparental disomy

Roberts, JL., Buckley, RH., Luo, B., Pei, J., Lapidus, A., Peri, S., Wei, Q., Shin, J., Parrott, RE., Dunbrack, RL. J., Testa, JR., Zhong, XP. & Wiest, DL., 2012, In : Proceedings of the National Academy of Sciences of the United States of America. 109, 26, p. 10456-10461

Research output

25 Citations (Scopus)

Erratum: Comparative genomics of Ceriporiopsis subvermispora and Phanerochaete chrysosporium provide insight into selective ligninolysis (Proceedings of the National Academy of Sciences (2012) 109 (5458-5463) DOI: 10.1073/pnas. 1119912109)

Fernandez-Fueyo, E., Ruiz-Dueñas, F. J., Ferreira, P., Floudas, D., Hibbett, D. S., Canessa, P., Larrondo, L. F., James, T. Y., Seelenfreund, D., Lobos, S., Polanco, R., Tello, M., Honda, Y., Watanabe, T., Watanabe, T., Ryu, J. S., Kubicek, C. P., Schmoll, M., Gaskell, J., Hammel, K. E. & 46 others, St John, F. J., Vanden Wymelenberg, A., Sabat, G., BonDurant, S. S., Syed, K., Yadav, J. S., Doddapaneni, H., Subramanian, V., Lavín, J. L., Oguiza, J. A., Perez, G., Pisabarro, A. G., Ramirez, L., Santoyo, F., Master, E., Coutinho, P. M., Henrissat, B., Lombard, V., Magnuson, J. K., Kües, U., Hori, C., Igarashi, K., Samejima, M., Held, B. W., Barry, K. W., LaButti, K. M., Lapidus, A., Lindquist, E. A., Lucas, S. M., Riley, R., Salamov, A. A., Hoffmeister, D., Schwenk, D., Hadar, Y., Yarden, O., De Vries, R. P., Wiebenga, A., Stenlid, J., Eastwood, D., Grigoriev, I. V., Berka, R. M., Blanchette, R. A., Kersten, P., Martinez, A. T., Vicuna, R. & Cullen, D., 22 May 2012, In : Proceedings of the National Academy of Sciences of the United States of America. 109, 21, 1 p.

Research output

9 Citations (Scopus)
2014

Characterization of Cyanobacterial Hydrocarbon Composition and Distribution of Biosynthetic Pathways

Coates, R. C., Podell, S., Korobeynikov, A., Lapidus, A., Pevzner, P., Sherman, D. H., Allen, E. E., Gerwick, L. & Gerwick, W. H., 2014, In : PLoS ONE. 9, 1, p. e85140

Research output

81 Citations (Scopus)
2013

Assembling Single-Cell Genomes and Mini-Metagenomes From Chimeric MDA Products

Nurk, S., Bankevich, A., Antipov, D., Gurevich, A. A., Korobeynikov, A., Lapidus, A., Prjibelski, A. D., Pyshkin, A., Sirotkin, A., Sirotkin, Y., Stepanauskas, R., Clingenpeel, S. R., Woyke, T., McLean, J. S., Lasken, R., Tesler, G., Alekseyev, M. A. & Pevzner, P. A., 2013, In : Journal of Computational Biology. 20, 10, p. 714-737

Research output

460 Citations (Scopus)
2020

MGnify: the microbiome analysis resource in 2020

Mitchell, A. L., Almeida, A., Beracochea, M., Boland, M., Burgin, J., Cochrane, G., Crusoe, M. R., Kale, V., Potter, S. C., Richardson, L. J., Sakharova, E., Scheremetjew, M., Korobeynikov, A., Shlemov, A., Kunyavskaya, O., Lapidus, A. & Finn, R. D., 8 Jan 2020, In : Nucleic Acids Research. 48, D1, p. D570-D578 9 p.

Research output

Open Access
2011

Complete genome sequence of the hyperthermophilic chemolithoautotroph Pyrolobus fumarii type strain (1A T)

Anderson, I., Göker, M., Nolan, M., Lucas, S., Hammon, N., Deshpande, S., Cheng, J. F., Tapia, R., Han, C., Goodwin, L., Pitluck, S., Huntemann, M., Liolios, K., Pagani, I., Mavromatis, K., Ovchinikova, G., Pati, A., Chen, A., Pala-Niappan, K., Land, M. & 18 others, Hauser, L., Brambilla, E. M., Huber, H., Yasawong, M., Rohde, M., Spring, S., Abt, B., Sikorski, J., Wirth, R., Detter, J. C., Woyke, T., Bristow, J., Eisen, J. A., Markowitz, V., Hugenholtz, P., Kyrpides, N. C., Klenk, H. P. & Lapidus, A., 5 Oct 2011, In : Standards in Genomic Sciences. 4, 3, p. 381-392 12 p.

Research output

8 Citations (Scopus)

Complete genome sequence of the acetate-degrading sulfate reducer Desulfobacca acetoxidans type strain (ASRB2 T)

Göker, M., Teshima, H., Lapidus, A., Nolan, M., Lucas, S., Hammon, N., Deshpande, S., Cheng, J. F., Tapia, R., Han, C., Goodwin, L., Pitluck, S., Huntemann, M., Liolios, K., Pagani, I., Mavromatis, K., Ovchinikova, G., Pati, A., Chen, A., Palaniappan, K. & 13 others, Land, M., Hauser, L., Brambilla, E. M., Rohde, M., Spring, S., Detter, J. C., Woyke, T., Bristow, J., Eisen, J. A., Markowitz, V., Hugenholtz, P., Kyrpides, N. C. & Klenk, H. P., 5 Oct 2011, In : Standards in Genomic Sciences. 4, 3, p. 393-401 9 p.

Research output

11 Citations (Scopus)

Complete genome sequence of the halophilic and highly halotolerant Chromohalobacter salexigens type strain (1H11 T)

Copeland, A., O'Connor, K., Lucas, S., Lapidus, A., Berry, K. W., Detter, J. C., del Rio, T. G., Hammon, N., Dalin, E., Tice, H., Pit-Luck, S., Bruce, D., Goodwin, L., Han, C., Tapia, R., Saund-Ers, E., Schmutz, J., Brettin, T., Larimer, F., Land, M. & 8 others, Hauser, L., Vargas, C., Nieto, J. J., Kyrpides, N. C., Göker, M., Klenk, H. P., Csonka, L. N. & Woyke, T., 1 Dec 2011, In : Standards in Genomic Sciences. 5, 3, p. 379-388 10 p.

Research output

Open Access
21 Citations (Scopus)