Research Output 1960 2018

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2017

A roadmap for improving the representation of photosynthesis in Earth system models

Rogers, A., Medlyn, B. E., Dukes, J. S., Bonan, G., von Caemmerer, S., Dietze, M. C., Kattge, J., Leakey, A. D. B., Mercado, L. M., Niinemets, Ü., Prentice, I. C., Serbin, S. P., Sitch, S., Way, D. A. & Zaehle, S. Jan 1 2017 In : New Phytologist. 213, 1, p. 22-42 21 p.

Research output: Contribution to journalComment/debate

Photosynthesis
biosphere
photosynthesis
Vapor Pressure
Carbon Cycle
Systems Biology
Genomics
Estrogen Receptors
Molecular Biology
Genes

Erratum: "The whole genome sequence of the Mediterranean fruit fly, Ceratitis capitata (Wiedemann), reveals insights into the biology and adaptive evolution of a highly invasive pest species", [Genome Biol. (2016), 17, (192)]

Papanicolaou, A. , Schetelig, M. F. , Arensburger, P. , Atkinson, P. W. , Benoit, J. B. , Bourtzis, K. , Castañera, P. , Cavanaugh, J. P. , Chao, H. , Childers, C. , Curril, I. , Dinh, H. , Doddapaneni, H. V. , Dolan, A. , Dugan, S. , Friedrich, M. , Gasperi, G. , Geib, S. , Georgakilas, G. , Gibbs, R. A. & 45 others Giers, S. D., Gomulski, L. M., González-Guzmán, M., Guillem-Amat, A., Han, Y., Hatzigeorgiou, A. G., Hernández-Crespo, P., Hughes, D. S. T., Jones, J. W., Karagkouni, D., Koskinioti, P., Lee, S. L., Malacrida, A. R., Manni, M., Mathiopoulos, K., Meccariello, A., Munoz-Torres, M., Murali, S. C., Murphy, T. D., Muzny, D. M., Oberhofer, G., Ortego, F., Paraskevopoulou, M. D., Poelchau, M., Qu, J., Reczko, M., Robertson, H. M., Rosendale, A. J., Rosselot, A. E., Saccone, G., Salvemini, M., Savini, G., Schreiner, P., Scolari, F., Siciliano, P., Sim, S. B., Tsiamis, G., Ureña, E., S.Vlachos, I., Werren, J. H., Wimmer, E. A., Worley, K. C., Zacharopoulou, A., Richards, S. & Handler, A. M. Jan 18 2017 In : Genome Biology. 18, 1, 11

Research output: Contribution to journalComment/debate

Ceratitis capitata
genome
Introduced Species
Genome
funding

Erratum to: Screening wild and semi-free ranging great apes for putative sexually transmitted diseases: Evidence of Trichomonadidae infections ((2015), 10.1002/ajp.22442)

Rushmore, J., Allison, A. B., Edwards, E. E., Bagal, U., Altizer, S., Cranfield, M. R., Glenn, T. C., Liu, H., Mudakikwa, A., Mugisha, L., Muller, M. N., Stumpf, R. M., Thompson, M. E., Wrangham, R. & Yabsley, M. J. Apr 1 2017 In : American Journal of Primatology. 79, 4, p. 1-2 2 p.

Research output: Contribution to journalComment/debate

urine
sampling
phylogeny
infection
phylogenetics
Nonequilibrium statistical mechanics
Statistical physics
Turbulence
statistical mechanics
turbulence

Unbroken: RADseq remains a powerful tool for understanding the genetics of adaptation in natural populations

Catchen, J. M., Hohenlohe, P. A., Bernatchez, L., Funk, W. C., Andrews, K. R. & Allendorf, F. W. May 1 2017 In : Molecular Ecology Resources. 17, 3, p. 362-365 4 p.

Research output: Contribution to journalComment/debate

researchers
genomics
genome
methodology
Genome
2016

A Hox-Embedded Long Noncoding RNA: Is It All Hot Air?

Selleri, L., Bartolomei, M. S., Bickmore, W. A., He, L., Stubbs, L., Reik, W. & Barsh, G. S. Dec 1 2016 In : PLoS Genetics. 12, 12, e1006485

Research output: Contribution to journalComment/debate

Long Noncoding RNA
RNA

Correction to "a General Strategy for the Discovery of Metabolic Pathways: D -Threitol, l -Threitol, and Erythritol Utilization in Mycobacterium smegmatis" (J. Am. Chem. Soc. (2015) 137 (14570-14573) 10.1021/jacs.5b08968)

Huang, H., Carter, M. S., Vetting, M. W., Al-Obaidi, N., Patskovsky, Y., Almo, S. C. & Gerlt, J. A. Apr 20 2016 In : Journal of the American Chemical Society. 138, 12, p. 4267 1 p.

Research output: Contribution to journalComment/debate

Metabolic Networks and Pathways

Erratum: Random Field Driven Spatial Complexity at the Mott Transition in VO2 (Physical Review Letters (2016) 116 (036401) DOI: 10.1103/PhysRevLett.116.036401)

Liu, S., Phillabaum, B., Carlson, E. W., Dahmen, K. A., Vidhyadhiraja, N. S., Qazilbash, M. M. & Basov, D. N. May 19 2016 In : Physical Review Letters. 116, 20, 209901

Research output: Contribution to journalComment/debate

Erratum: DICER1 and microRNA regulation in post-traumatic stress disorder with comorbid depression (Nature Communications (2015) 6 (10106) DOI: 10.1038/ncomms10106)

Wingo, A. P., Almli, L. M., Stevens, J. S., Klengel, T., Uddin, M., Li, Y., Bustamante, A. C., Lori, A., Koen, N., Stein, D. J., Smith, A. K., Aiello, A. E., Koenen, K. C., Wildman, D. E., Galea, S., Bradley, B., Binder, E. B., Jin, P., Gibson, G. & Ressler, K. J. Mar 3 2016 In : Nature Communications. 7, 10958

Research output: Contribution to journalComment/debate

Erratum: Genome of Rhodnius prolixus, an insect vector of Chagas disease, reveals unique adaptations to hematophagy and parasite infection (Proceedings of the National Academy of Sciences of the United States of America (2015) 112 (14936-14941) DOI 10.1073/pnas.1506226112)

Mesquita, R. D. , Vionette-Amaral, R. J. , Lowenberger, C. , Rivera-Pomar, R. , Monteiro, F. A. , Minx, P. , Spieth, J. , Carvalho, A. B. , Panzera, F. , Lawson, D. , Torres, A. Q. , Ribeiro, J. M. C. , Sorgine, M. H. F. , Waterhouse, R. M. , Montague, M. J. , Abad-Franch, F. , Alves-Bezerra, M. , Amaral, L. R. , Araujo, H. M. , Araujo, R. N. & 97 others Aravind, L., Atella, G. C., Azambuja, P., Berni, M., Bittencourt-Cunha, P. R., Braz, G. R. C., Calderón-Fernández, G., Carareto, C. M. A., Christensen, M. B., Costa, I. R., Costa, S. G., Dansa, M., Daumas-Filho, C. R. O., De-Paula, I. F., Dias, F. A., Dimopoulos, G., Emrich, S. J., Esponda-Behrens, N., Fampa, P., Fernandez-Medina, R. D., Da Fonseca, R. N., Fontenele, M., Fronick, C., Fulton, L. A., Gandara, A. C., Garcia, E. S., Genta, F. A., Giraldo-Calderón, G. I., Gomes, B., Gondim, K. C., Granzotto, A., Guarneri, A. A., Guigó, R., Harry, M., Hughes, D. S. T., Jablonka, W., Jacquin-Joly, E., Juárez, M. P., Koerich, L. B., Lange, A. B., Latorre-Estivalis, J. M., Lavore, A., Lawrence, G. G., Lazoski, C., Lazzari, C. R., Lopes, R. R., Lorenzo, M. G., Lugon, M. D., Majerowicz, D., Marcet, P. L., Mariotti, M., Masuda, H., Megy, K., Melo, A. C. A., Missirlis, F., Mota, T., Noriega, F. G., Nouzova, M., Nunes, R. D., Oliveir, R. L. L., Oliveira-Silveira, G., Ons, S., Orchard, I., Pagola, L., Paiva-Silva, G. O., Pascual, A., Pavan, M. G., Pedrini, N., Peixoto, A. A., Pereira, M. H., Pike, A., Polycarpo, C., Prosdocimi, F., Ribeiro-Rodrigues, R., Robertson, H. M., Salerno, A. P., Salmon, D., Santesmasses, D., Schama, R., Seabra, E. S., Silva-Cardoso, L., Silva-Neto, M. A. C., Souza-Gomes, M., Sterkel, M., Taracena, M. L., Tojo, M., Tu, Z. J., Tubio, J. M. C., Ursic-Bedoya, R., Venancio, T. M., Walter-Nuno, A. B., Wilson, D., Warren, W. C., Wilson, R. K., Huebner, E., Dotson, E. M. & Oliveira, P. L. Mar 8 2016 In : Proceedings of the National Academy of Sciences of the United States of America. 113, 10, p. E1415-E1416

Research output: Contribution to journalComment/debate

Erratum: The spotted gar genome illuminates vertebrate evolution and facilitates human-teleost comparisons (Nature Genetics (2016) 48 (427-437))

Braasch, I. , Gehrke, A. R. , Smith, J. J. , Kawasaki, K. , Manousaki, T. , Pasquier, J. , Amores, A. , Desvignes, T. , Batzel, P. , Catchen, J. , Berlin, A. M. , Campbell, M. S. , Barrell, D. , Martin, K. J. , Mulley, J. F. , Ravi, V. , Lee, A. P. , Nakamura, T. , Chalopin, D. , Fan, S. & 41 others Wcisel, D., Cañestro, C., Sydes, J., Beaudry, F. E. G., Sun, Y., Hertel, J., Beam, M. J., Fasold, M., Ishiyama, M., Johnson, J., Kehr, S., Lara, M., Letaw, J. H., Litman, G. W., Litman, R. T., Mikami, M., Ota, T., Saha, N. R., Williams, L., Stadler, P. F., Wang, H., Taylor, J. S., Fontenot, Q., Ferrara, A., Searle, S. M. J., Aken, B., Yandell, M., Schneider, I., Yoder, J. A., Volff, J. N., Meyer, A., Amemiya, C. T., Venkatesh, B., Holland, P. W. H., Guiguen, Y., Bobe, J., Shubin, N. H., Di Palma, F., Alföldi, J., Lindblad-Toh, K. & Postlethwait, J. H. Jun 1 2016 In : Nature Genetics. 48, 6, p. 700 1 p.

Research output: Contribution to journalComment/debate

Erratum: Temporal variation selects for diet-microbe co-metabolic traits in the gut of Gorilla spp (The ISME Journal (2016) 10, 532; (DOI:10.1038/ismej.2015.252))

Gomez, A., Rothman, J. M., Petrzelkova, K., Yeoman, C. J., Vlckova, K., Umaña, J. D., Carr, M., Modry, D., Todd, A., Torralba, M., Nelson, K. E., Stumpf, R. M., Wilson, B. A., Blekhman, R., White, B. A. & Leigh, S. R. Feb 1 2016 In : ISME Journal. 10, 2, p. 532 1 p.

Research output: Contribution to journalComment/debate

Erratum to Episodic diversifying selection shaped the genomes of gibbon ape leukemia virus and related gammaretroviruses [J Virol, 90, 4 (2016) 1757-1772]

Alfano, N., Kolokotronis, S. O., Tsangaras, K., Roca, A. L., Xu, W., Eiden, M. V. & Greenwood, A. D. Apr 1 2016 In : Journal of Virology. 90, 8, p. 4254 1 p.

Research output: Contribution to journalComment/debate

Gibbon ape leukemia virus
Gammaretrovirus
Genome

Erratum to Unraveling the pectinolytic function of Bacteroides xylanisolvens using a RNA-seq approach and mutagenesis [BMC Genomics, (2016), 17] DOI: 10.1186/s12864-016-2472-1

Despres, J., Forano, E., Lepercq, P., Comtet-Marre, S., Jubelin, G., Yeoman, C. J., Miller, M. E. B., Fields, C. J., Terrapon, N., Le Bourvellec, C., Renard, C. M. G. C., Henrissat, B., White, B. A. & Mosoni, P. Jun 6 2016 In : BMC Genomics. 17, 1, 426

Research output: Contribution to journalComment/debate

Bacteroides
Genomics
Mutagenesis
RNA

Georgian white coat color of red fox (Vulpes vulpes) maps to fox chromosome 2 in the region containing KIT gene

Kukekova, A. V., Johnson, J. L., Kharlamova, A. V., Vladimirova, A. V., Shepeleva, D. V., Gulevich, R. G. & Trut, L. N. Aug 1 2016 In : Animal Genetics. 47, 4, p. 514-515 2 p.

Research output: Contribution to journalComment/debate

Microbiomes, metagenomics, and primate conservation: New strategies, tools, and applications

Stumpf, R. M., Gomez, A., Amato, K. R., Yeoman, C. J., Polk, J. D., Wilson, B. A., Nelson, K. E., White, B. A. & Leigh, S. R. Jul 1 2016 In : Biological Conservation. 199, p. 56-66 11 p.

Research output: Contribution to journalComment/debate

Primates
primate
microbiome
monitoring
microbial communities

Nanopore Sequencing: Graphene Nanopores for Protein Sequencing (Adv. Funct. Mater. 27/2016)

Wilson, J., Sloman, L., He, Z. & Aksimentiev, A. Jul 19 2016 In : Advanced Functional Materials. 26, 27, p. 4829 1 p.

Research output: Contribution to journalComment/debate

Nanopores

Pet scans

Fan, T. M., Le Blanc, A. K. & Mason, N. Apr 1 2016 In : Scientist. 30, 4

Research output: Contribution to journalComment/debate

Transgenic bovine as bioreactors: Challenges and perspectives

Monzani, P. S., Adona, P. R., Ohashi, O. M., Meirelles, F. V. & Wheeler, M. B. Apr 1 2016 In : Bioengineered. 7, 3, p. 123-131 9 p.

Research output: Contribution to journalComment/debate

Bioreactors
Recombinant Proteins
Recombinant proteins
Milk
Proteins
2015

AAAS annual election: Preliminary announcement

Anderson, J. L., Hockfield, S., Beall, C. M., Berenbaum, M. R., Miranda, M. L., Stuss, D. T., Borchelt, R. E., Clark, A. M., Dunwoody, S., Francisco, J. S., Graham, S. L., Harthorn, B. H., Press, W. H. & Raven, P. H. Sep 25 2015 In : Science. 349, 6255, p. 1466 1 p.

Research output: Contribution to journalComment/debate

A roadmap for research on crassulacean acid metabolism (CAM) to enhance sustainable food and bioenergy production in a hotter, drier world

Yang, X. , Cushman, J. C. , Borland, A. M. , Edwards, E. J. , Wullschleger, S. D. , Tuskan, G. A. , Owen, N. A. , Griffiths, H. , Smith, J. A. C. , De Paoli, H. C. , Weston, D. J. , Cottingham, R. , Hartwell, J. , Davis, S. C. , Silvera, K. , Ming, R. , Schlauch, K. , Abraham, P. , Stewart, J. R. , Guo, H. B. & 31 others Albion, R., Ha, J., Lim, S. D., Wone, B. W. M., Yim, W. C., Garcia, T., Mayer, J. A., Petereit, J., Nair, S. S., Casey, E., Hettich, R. L., Ceusters, J., Ranjan, P., Palla, K. J., Yin, H., Reyes-García, C., Andrade, J. L., Freschi, L., Beltrán, J. D., Dever, L. V., Boxall, S. F., Waller, J., Davies, J., Bupphada, P., Kadu, N., Winter, K., Sage, R. F., Aguilar, C. N., Schmutz, J., Jenkins, J. & Holtum, J. A. M. Aug 1 2015 In : New Phytologist. 207, 3, p. 491-504 14 p.

Research output: Contribution to journalComment/debate

Crassulacean acid metabolism
Food
Acids
Water
crops

Correction to: Genome-Wide Analyses Reveal a Role for Peptide Hormones in Planarian Germline Development(PLoS Biol, (2015), 13,8)

Collins, J. J., Hou, X., Romanova, E. V., Lambrus, B. G., Miller, C. M., Saberi, A., Sweedler, J. V. & Newmark, P. A. Aug 14 2015 In : PLoS Biology. 13, 8, e1002234

Research output: Contribution to journalComment/debate

Documenting bee decline or squandering scarce resources

Tepedino, V. J., Durham, S., Cameron, S. A. & Goodell, K. Feb 1 2015 In : Conservation Biology. 29, 1, p. 280-282 3 p.

Research output: Contribution to journalComment/debate

bee
resource

Erratum: Computational high-resolution optical imaging of the living human retina (Nature Photonics (2015) 9 (440-443))

Shemonski, N. D., South, F. A., Liu, Y. Z., Adie, S. G., Carney, P. S. & Boppart, S. A. Sep 29 2015 In : Nature Photonics. 9, 10, p. 702 1 p.

Research output: Contribution to journalComment/debate

Erratum: Genome-wide adaptive complexes to underground stresses in blind mole rats Spalax (Nature Communications (2015) 5 (3966) DOI: 10.1038/ncomms4966)

Fang, X. , Nevo, E. , Han, L. , Levanon, E. Y. , Zhao, J. , Avivi, A. , Larkin, D. , Jiang, X. , Feranchuk, S. , Zhu, Y. , Fishman, A. , Feng, Y. , Sher, N. , Xiong, Z. , Hankeln, T. , Huang, Z. , Gorbunova, V. , Zhang, L. , Zhao, W. , Wildman, D. E. & 33 others Xiong, Y., Gudkov, A., Zheng, Q., Rechavi, G., Liu, S., Bazak, L., Chen, J., Knisbacher, B. A., Lu, Y., Shams, I., Gajda, K., Farré, M., Kim, J., Lewin, H. A., Ma, J., Band, M., Bicker, A., Kranz, A., Mattheus, T., Schmidt, H., Seluanov, A., Azpurua, J., McGowen, M. R., Ben Jacob, E., Li, K., Peng, S., Zhu, X., Liao, X., Li, S., Krogh, A., Zhou, X., Brodsky, L. & Wang, J. Aug 12 2015 In : Nature Communications. 6, 8051

Research output: Contribution to journalComment/debate

Erratum to optical coherence tomography for the diagnosis and evaluation of human otitis media [J Korean Med Sci 2015; 30: 328-335]

Cho, N. H., Lee, S. H., Jung, W., Jang, J. H., Boppart, S. A. & Kim, J. 2015 In : Journal of Korean Medical Science. 30, 6, p. 834 1 p.

Research output: Contribution to journalComment/debate

Optical Coherence Tomography
Otitis Media

Expanding the Biology Toolkit

Bertozzi, C., Ge, H., Ma, J. & Milenkovic, O. Dec 3 2015 In : Cell. 163, 6, p. 1306 1 p.

Research output: Contribution to journalComment/debate

Jun-Long Zhang

Zhang, J. L., Che, C. M. & Lu, Y. 2015 In : ChemPlusChem. 80, 1, p. 25 1 p.

Research output: Contribution to journalComment/debate

Leo Philip Kadanoff: Maestro who connected physics on multiple scales

Goldenfeld, N. Dec 1 2015 In : Nature Physics. 11, 12, p. 995 1 p.

Research output: Contribution to journalComment/debate

Resolving regulatory uncertainty: Legislative language for potentially invasive bioenergy feedstocks

Quinn, L. D., Scott, E. C., Endres, A. B., Barney, J. N., Voigt, T. B. & Mccubbins, J. Sep 1 2015 In : GCB Bioenergy. 7, 5, p. 909-915 7 p.

Research output: Contribution to journalComment/debate

bioenergy
Crops
energy crops
feedstocks
Feedstocks

Response to Comment on "Whole-genome analyses resolve early branches in the tree of life of modern birds"

Cracraft, J., Houde, P., Ho, S. Y. W., Mindell, D. P., Fjeldså, J., Lindow, B., Edwards, S. V., Rahbek, C., Mirarab, S., Warnow, T., Gilbert, M. T. P., Zhang, G., Braun, E. L. & Jarvis, E. D. Sep 25 2015 In : Science. 349, 6255, p. 1460-b

Research output: Contribution to journalComment/debate

Birds
Genome
Biological Extinction
Phylogeny

Settling the debate on birth order and personality

Damian, R. I. & Roberts, B. W. Nov 17 2015 In : Proceedings of the National Academy of Sciences of the United States of America. 112, 46, p. 14119-14120 2 p.

Research output: Contribution to journalComment/debate

Birth Order
Personality

Targeting leukemic stem cells with multifunctional bioactive polypeptide nanoparticles

Uckun, F. M., Qazi, S. & Cheng, J. Apr 1 2015 In : Future Oncology. 11, 8, p. 1149-1152 4 p.

Research output: Contribution to journalComment/debate

Nanoparticles
Stem Cells
Peptides
2014

Black and white with some shades of grey: The diverse responses of inducible metabolic pathways in Escherichia coli

Rao, C. V. & Koirala, S. Sep 1 2014 In : Molecular Microbiology. 93, 6, p. 1079-1083 5 p.

Research output: Contribution to journalComment/debate

Lactose
Metabolic Networks and Pathways
Escherichia coli
Lac Operon
Carbohydrates

Erratum: DNA looping increases the range of bistability in a stochastic model of the lac genetic switch (Physical Biology (2013) 10 (026002))

Earnest, T. M., Roberts, E., Assaf, M., Dahmen, K. & Luthey-Schulten, Z. 2014 In : Physical Biology. 11, 2, 029501

Research output: Contribution to journalComment/debate

Erratum: Spatial organization of Pseudomonas aeruginosa biofilms probed by combined matrix-assisted laser desorption ionization mass spectrometry and confocal Raman microscopy (Analyst (2014) DOI: 10.1039/c4an00435c)

Masyuko, R. N., Lanni, E. J., Driscoll, C. M., Shrout, J. D., Sweedler, J. V. & Bohn, P. W. Nov 21 2014 In : Analyst. 139, 22, p. 6058-6060 3 p.

Research output: Contribution to journalComment/debate

Erratum to: Temperature Effects on Deformation and Serration Behavior of High-Entropy Alloys (HEAs)(JOM, 66, 10, (2014), DOI 10.1007/s11837-014-1130-9)

Antonaglia, J., Xie, X., Tang, Z., Tsai, C. W., Qiao, J. W., Zhang, Y., Laktionova, M. O., Tabachnikova, E. D., Carroll, R., Yeh, J. W., Senkov, O. N., Gao, M. C., Uhl, J. T., Liaw, P. K. & Dahmen, K. A. Nov 25 2014 In : JOM. 66, 12, p. 2593 1 p.

Research output: Contribution to journalComment/debate

Happy Anniversary, Journal of Chemical Ecology!

Berenbaum, M. R. Apr 1 2014 In : Journal of Chemical Ecology. 40, 4, p. 308 1 p.

Research output: Contribution to journalComment/debate

chemical ecology

Uranium extraction: Coordination chemistry in the ocean

Lu, Y. Mar 2014 In : Nature Chemistry. 6, 3, p. 175-176 2 p.

Research output: Contribution to journalComment/debate

Uranium
2013

Biochemistry: Positive and radical

Peck, S. C. & Van Der Donk, W. A. Apr 4 2013 In : Nature. 496, 7443, p. 34-35 2 p.

Research output: Contribution to journalComment/debate

Biochemistry

Childhood obesity prevention from cell to society

Fiese, B. H., Bost, K. K., McBride, B. A. & Donovan, S. M. Aug 2013 In : Trends in Endocrinology and Metabolism. 24, 8, p. 375-377 3 p.

Research output: Contribution to journalComment/debate

Pediatric Obesity
Family Planning Policy
Family Health
Public Policy
Child Development
Xenopus
Anura
Epithelium

Just Ask the Expert: Are intact dogs less likely to get cancer?

Fan, T. M. Jun 2013 In : Veterinary Medicine. 108, 6

Research output: Contribution to journalComment/debate

2012

An enhanced protein crosslink identification strategy using CID-cleavable chemical crosslinkers and LC/MS n analysis

Liu, F., Wu, C., Sweedler, J. V. & Goshe, M. B. Feb 2012 In : Proteomics. 12, 3, p. 401-405 5 p.

Research output: Contribution to journalComment/debate

Peptides
Proteins
Cross-Linking Reagents
Complex Mixtures
Proline

Animal behaviour: Personality in the wild

Bell, A. M. Nov 15 2012 In : Nature. 491, 7424, p. 341-342 2 p.

Research output: Contribution to journalComment/debate

Animal Behavior