[* denotes equal contribution]

In Prep

  1. Saw JH, Malmstrom R, Woyke T, Temperton B, Sharpton T, Giovannoni SJ. Exploration of SAR11 hypervariable region diversity using hybrid sequencing technologies. In Prep.
  2. Pelve EA*, Saw JH*, Hedlund B, Nunoura T, Spang A, and Ettema TJG. Cultivation-independent genomics of marine and terrestrial Korarchaeota reveal insights into their diversity, evolution and ecology. In Prep.

In Review/Preprint

  1. Saw JH, Nunoura T, Hirai M, Takaki Y, Parsons R, Michelsen M, Longnecker K, Kujawinski EB, Stepanauskas R, Landry Z, Carlson CA, Giovannoni SJ (2019). Pangenomics reveal diversification of enzyme families and niche specialization in globally abundant SAR202 bacteria. bioRxiv.

Published

  1. Giovannoni SJ, Halsey KH, Saw J, Muslin O, Suffridge CP, Sun J, Lee CP, Moore ER, Temperton B, Noell SE (2019). A Parasitic Arsenic Cycle That Shuttles Energy from Phytoplankton to Heterotrophic Bacterioplankton. MBio. 10(2). pii: e00246-19.
  2. Spang A*, Eme L*, Saw JH, Caceres EF, Zaremba-Niedzwiedzka K, Lombard J, Guy L, Ettema TJG (2018). Asgard archaea are the closest prokaryotic relatives of eukaryotes. PLoS Genetics. 14(3):e1007080.
  3. Zaremba-Niedzwiedzka K*, Caceres EF*, Saw JH*, Bäckström D, Juzokaite L, Vancaester E, Seitz KW, Anantharaman K, Starnawski P, Kjeldsen KU, Stott MB, Nunoura T, Banfield JF, Schramm A, Baker BJ, Spang A, and Ettema TJG (2017). Metagenomic exploration of ASGARD archaea illuminates the origin of eukaryotic cellular complexity. Nature. 541(7637):353-358.
  4. Baker BJ, Saw JH, Lind AE, Lazar C, Hinrichs K-U, Teske A, and Ettema TJG (2016). Genomic inference of the metabolism of cosmopolitan subsurface Archaea, Hadesarchaea. Nature Microbiology 1: 16002.
  5. Saw JH, Spang A, Zaremba-Niedzwiedzka K, Juzokaite L, Dodsworth JA, Murugapiran S, Colman DR, Takacs-Vesbach C, Hedlund BP, Guy L, Ettema TJG (2015). Exploring microbial dark matter to resolve the deep archaeal ancestry of eukaryotes. Phil. Trans. R. Soc. B 370(1678).
  6. Spang A*, Saw JH*, Jørgensen SL*, Zaremba-Niedzwiedzka K*, Martijn J, Lind AE, van Eijk R, Schleper C, Guy L, Ettema TJG (2015). Complex archaea that bridge the gap between prokaryotes and eukaryotes. Nature 521: 173-179.
  7. Zepeda VK, Busse H-J, Golke J, Saw JH, Alam M, Donachie SP (2015). Terasakiispira papahanaumokuakeensis gen. nov., sp. nov., a Gammaproteobacterium from Pearl and Hermes Atoll, Northwestern Hawaiian Islands. IJSEM 65(10):3609-17.
  8. Guy L, Spang A, Saw JH, Ettema TJG (2014). Geoarchaeote NAG1 is a deeply-rooting lineage of the archaeal order Thermoproteales rather than a new phylum. ISME J 8(7):1353-7.
  9. Guy L, Saw JH, Ettema TJG (2014). The archaeal legacy of eukaryotes: a phylogenomic perspective. Cold Spring Harb Perspect Biol. 6(10):a016022.
  10. Spang A, Martijn J, Lind AE, Saw J, Guy L, Ettema TJG (2013) Close encounters of the Third Domain: the emerging genomic view of archaeal diversity and evolution. Archaea 2013:202358.
  11. Saw JH, Schatz MC, Brown MV, Kunkel DD, Foster JS, Shick H, Christensen S, Hou S, Wan X, Donachie SP (2013). Cultivation and Complete Genome Sequencing of Gloeobacter kilaueensis sp. nov., from a Lava Cave in Kilauea Caldera, Hawai‘i. PLoS ONE 8(10):e76376.
  12. Kuo I, Saw JH, Kapan DD, Christensen S, Kaneshiro KY, Donachie SP (2013). Flavobacterium akiainvivens sp. nov., from decaying wood of Wikstroemia oahuensis, Hawai‘i, and emended description of the genus Flavobacterium. IJSEM 63(Pt 9):3280-6.
  13. Saw JH, Yuryev A, Kanbe M, Hou S, Young AG, Aizawa S-I, Alam M (2012). Complete genome sequencing and analysis of Saprospira grandis str. Lewin, a predatory marine bacterium. Stand Genomic Sci 5:84-93.
  14. Woyke T, Xie G, Copeland A, Gonzlez JM, Han C, Kiss H, Saw JH, Senin P, Yang C, Chatterji S, Cheng JF, Eisen JA, Sieracki ME, Stepanauskas R (2009). Assembling the marine metagenome, one cell at a time. PLoS ONE 4(4):e5299.
  15. Saw JH, Mountain BW, Feng L, Omelchenko MV, Hou S, Saito JA, Stott MB, Li D, Zhao G, Wu J, Galperin MY, Koonin EV, Makarova KS, Wolf YI, Rigden DJ, Dunfield PF, Wang L, Alam M (2008). Encapsulated in silica: genome, proteome and physiology of the thermophilic bacterium Anoxybacillus flavithermus WK1. Genome Biol 9(11):R161.
  16. Hou S*, Makarova KS*, Saw JH*, Senin P, Ly BV, Zhou Z, Ren Y, Wang J, Galperin MY, Omelchenko MV, Wolf YI, Yutin N, Koonin EV, Stott MB, Mountain BW, Crowe MA, Smirnova AV, Dunfield PF, Feng L, Wang L, Alam M (2008). Complete genome sequence of the extremely acidophilic methanotroph isolate V4, “Methylacidiphilum infernorum”, a representative of the bacterial phylum Verrucomicrobia. Biol Direct 3(1):26.
  17. Suzuki JY, Tripathi S, Fermn GA, Jan F-J, Hou S, Saw JH, Ackerman CM, Yu Q, Schatz MC, Pitz KY, Ypes M, Fitch MMM, Manshardt RM, Slightom JL, Ferreira SA, Salzberg SL, Alam M, Ming R, Moore PH, Gonsalves D (2008). Characterization of Insertion Sites in Rainbow Papaya, the First Commercialized Transgenic Fruit Crop. Tropical Plant Biology 1: 293-309.
  18. Ming R*, Hou S*, Feng Y*, Yu Q, Dionne-Laporte A, Saw JH, Senin P, Wang W, Ly BV, Lewis KL, Salzberg SL, Feng L, Jones MR, Skelton RL, Murray JE, Chen C, Qian W, Shen J, Du P, Eustice M, Tong E, Tang H, Lyons E, Paull RE, Michael TP, Wall K, Rice DW, Albert H, Wang ML, Zhu YJ, Schatz M, Nagarajan N, Acob RA, Guan P, Blas A, Wai CM, Ackerman CM, Ren Y, Liu C, Wang J, Wang J, Na JK, Shakirov EV, Haas B, Thimmapuram J, Nelson D, Wang X, Bowers JE, Gschwend AR, Delcher AL, Singh R, Suzuki JY, Tripathi S, Neupane K, Wei H, Irikura B, Paidi M, Jiang N, Zhang W, Presting G, Windsor A, Navajas-Pérez R, Torres MJ, Feltus FA, Porter B, Li Y, Burroughs AM, Luo MC, Liu L, Christopher DA, Mount SM, Moore PH, Sugimura T, Jiang J, Schuler MA, Friedman V, Mitchell-Olds T, Shippen DE, dePamphilis CW, Palmer JD, Freeling M, Paterson AH, Gonsalves D, Wang L, Alam M (2008). The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus). Nature 452(7190):991-6.
  19. Yu Q, Hou S, Feltus FA, Jones MR, Murray JE, Veatch O, Lemke C, Saw JH, Moore RC, Thimmapuram J, Liu L, Moore PH, Alam M, Jiang J, Paterson AH, Ming R (2008). Low X/Y divergence in four pairs of papaya sex-linked genes. Plant J 53(1):124-32.
  20. Dunfield PF, Yuryev A, Senin P, Smirnova AV, Stott MB, Hou S, Ly B, Saw JH, Zhou Z, Ren Y, Wang J, Mountain BW, Crowe MA, Weatherby TM, Bodelier PL, Liesack W, Feng L, Wang L, Alam M (2007). Methane oxidation by an extremely acidophilic bacterium of the phylum Verrucomicrobia. Nature 450(7171):879-82.
  21. Chen C, Yu Q, Hou S, Li Y, Eustice M, Skelton RL, Veatch O, Herdes R, Diebold L, Saw J, Feng Y, Qian W, Bynum L, Wang L, Moore PH, Paull RE, Alam M, Ming R (2007). Construction of a Sequence-Tagged High Density Genetic Map of Papaya. Genetics 177(4):2481-91.
  22. Yu Q, Hou S, Hobza R, Feltus FA, Wang X, Jin W, Skelton RL, Blas A, Lemke C, Saw JH, Moore PH, Alam M, Jiang J, Paterson AH, Vyskot B, Ming R (2007). Chromosomal location and gene paucity of the male specific region on papaya Y chromosome. Mol Genet Genomics 278(2):177-85.
  23. Hou S, Saw JH, Lee KS, Freitas TA, Belisle C, Kawarabayasi Y, Donachie SP, Galperin MY, Koonin EV, Makarova KS, Omelchenko MV, Sorokin A, Wolf Y, Li Q, Keum YS, Campbell S, Denery J, Aizawa S-I, Shibata S, Malahoff A and Alam M (2004). Genome sequence of the deep-sea gamma-proteobacterium Idiomarina loihiensis reveals amino acid fermentation as a source of carbon and energy. PNAS 101 (52): 18036-18041.
  24. Yu HS, Saw JH, Hou S, Larsen RW, Watts KJ, Johnson MS, Zimmer MA, Ordal GW, Taylor BL, Alam M (2002). Aerotactic responses in bacteria to photoreleased oxygen. FEMS Microbiol Lett 217(2):237-42.

Home