Alvaro Gonzalo Hernandez

2022

Expanding the Molecular Alphabet of DNA-Based Data Storage Systems with Neural Network Nanopore Readout Processing

Tabatabaei, S. K., Pham, B., Pan, C., Liu, J., Chandak, S., Shorkey, S. A., Hernandez, A. G., Aksimentiev, A., Chen, M., Schroeder, C. M. & Milenkovic, O., Mar 9 2022, In: Nano letters. 22, 5, p. 1905-1914 10 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Genomic regions associated with virulence in Setosphaeria turcica identified by linkage mapping in a biparental population

Singh, P., Huang, S. Y., Hernandez, A. G., Adhikari, P., Jamann, T. M. & Mideros, S. X., Apr 2022, In: Fungal Genetics and Biology. 159, 103655.

Research output: Contribution to journal › Article › peer-review

Open Access

2021

Interacting Impact of Maternal Inflammatory Response and Stress on the Amygdala Transcriptome of Pigs

Keever-Keigher, M. R., Zhang, P., Bolt, C. R., Rymut, H. E., Antonson, A. M., Corbett, M. P., Houser, A. K., Hernandez, A. G., Southey, B. R., Rund, L. A., Johnson, R. W. & Rodriguez-Zas, S. L., Aug 2021, In: G3 (Bethesda, Md.). 11, 8, jkab113.

Research output: Contribution to journal › Article › peer-review

Open Access

Pursuing Advances in DNA Sequencing Technology to Solve a Complex Genomic Jigsaw Puzzle: The Agglutinin-Like Sequence (ALS) Genes of Candida tropicalis

Oh, S. H., Isenhower, A., Rodriguez-Bobadilla, R., Smith, B., Jones, J., Hubka, V., Fields, C., Hernandez, A. & Hoyer, L. L., Jan 20 2021, In: Frontiers in Microbiology. 11, 594531.

Research output: Contribution to journal › Article › peer-review

Open Access

Three-dimensional microscale hanging drop arrays with geometric control for drug screening and live tissue imaging

Ganguli, A., Mostafa, A., Saavedra, C., Kim, Y., Le, P., Faramarzi, V., Feathers, R. W., Berger, J., Ramos-Cruz, K. P., Adeniba, O., Diaz, G. J. P., Drnevich, J., Wright, C. L., Hernandez, A. G., Lin, W., Smith, A. M., Kosari, F., Vasmatzis, G., Anastasiadis, P. Z. & Bashir, R., Apr 21 2021, In: Science Advances. 7, 17, eabc1323.

Research output: Contribution to journal › Article › peer-review

Open Access

Ultra-long DNA molecule isolation from plant nuclei for ultra-long read genome sequencing

Zerpa-Catanho, D., Zhang, X., Song, J., Hernandez, A. G. & Ming, R., Mar 19 2021, In: STAR Protocols. 2, 1, 100343.

Research output: Contribution to journal › Article › peer-review

Open Access

Using Genomics to Shape the Definition of the Agglutinin-Like Sequence (ALS) Family in the Saccharomycetales

Oh, S. H., Schliep, K., Isenhower, A., Rodriguez-Bobadilla, R., Vuong, V. M., Fields, C. J., Hernandez, A. G. & Hoyer, L. L., Dec 14 2021, In: Frontiers in Cellular and Infection Microbiology. 11, 794529.

Research output: Contribution to journal › Article › peer-review

Open Access

2020

Association of Common Genetic Variants in the CPSF7 and SDHAF2 Genes with Canine Idiopathic Pulmonary Fibrosis in the West Highland White Terrier

Piras, I. S., Bleul, C., Siniard, A., Wolfe, A. J., De Both, M. D., Hernandez, A. G. & Huentelman, M. J., Jun 2020, In: Genes. 11, 6, 609.

Research output: Contribution to journal › Article › peer-review

Open Access

A Staphylococcus pro-apoptotic peptide induces acute exacerbation of pulmonary fibrosis

D’alessandro-gabazza, C. N., Kobayashi, T., Yasuma, T., Toda, M., Kim, H., Fujimoto, H., Hataji, O., Takeshita, A., Nishihama, K., Okano, T., Okano, Y., Nishii, Y., Tomaru, A., Fujiwara, K., D’alessandro, V. F., Abdel-hamid, A. M., Ren, Y., Pereira, G. V., Wright, C. L., Hernandez, A. & 15 others, Fields, C. J., Yau, P. M., Wang, S., Mizoguchi, A., Fukumura, M., Ohtsuka, J., Nosaka, T., Kataoka, K., Kondoh, Y., Wu, J., Kawagishi, H., Yano, Y., Mackie, R. I., Cann, I. & Gabazza, E. C., Dec 1 2020, In: Nature Communications. 11, 1, 1539.

Research output: Contribution to journal › Article › peer-review

Open Access

DNA punch cards for storing data on native DNA sequences via enzymatic nicking

Tabatabaei, S. K., Wang, B., Athreya, N. B. M., Enghiad, B., Hernandez, A. G., Fields, C. J., Leburton, J. P., Soloveichik, D., Zhao, H. & Milenkovic, O., Dec 1 2020, In: Nature communications. 11, 1, 1742.

Research output: Contribution to journal › Article › peer-review

Open Access

Lasting and Sex-Dependent Impact of Maternal Immune Activation on Molecular Pathways of the Amygdala

Keever, M. R., Zhang, P., Bolt, C. R., Antonson, A. M., Rymut, H. E., Caputo, M. P., Houser, A. K., Hernandez, A. G., Southey, B. R., Rund, L. A., Johnson, R. W. & Rodriguez-Zas, S. L., Aug 11 2020, In: Frontiers in Neuroscience. 14, 774.

Research output: Contribution to journal › Article › peer-review

Open Access

The ‘in vivo lifestyle’ of bile acid 7α-dehydroxylating bacteria: comparative genomics, metatranscriptomic, and bile acid metabolomics analysis of a defined microbial community in gnotobiotic mice

Ridlon, J. M., Devendran, S., Alves, J. M., Doden, H., Wolf, P. G., Pereira, G. V., Ly, L., Volland, A., Takei, H., Nittono, H., Murai, T., Kurosawa, T., Chlipala, G. E., Green, S. J., Hernandez, A. G., Fields, C. J., Wright, C. L., Kakiyama, G., Cann, I., Kashyap, P. & 2 others, McCracken, V. & Gaskins, H. R., May 3 2020, In: Gut Microbes. 11, 3, p. 381-404 24 p.

Research output: Contribution to journal › Article › peer-review

Open Access

2019

Characterization of the Candida orthopsilosis agglutinin-like sequence (ALS) genes

Lombardi, L., Zoppo, M., Rizzato, C., Bottai, D., Hernandez, A. G., Hoyer, L. L. & Tavanti, A., Apr 2019, In: PloS one. 14, 4, e0215912.

Research output: Contribution to journal › Article › peer-review

Open Access

Clostridium scindens ATCC 35704: Integration of nutritional requirements, the complete genome sequence, and global transcriptional responses to bile acids

Devendran, S., Shrestha, R., Alves, J. M. P., Wolf, P. G., Ly, L., Hernandez, A. G., Méndez-García, C., Inboden, A., Wiley, J., Paul, O., Allen, A., Springer, E., Wright, C. L., Fields, C. J., Daniel, S. L. & Ridlon, J. M., Apr 1 2019, In: Applied and environmental microbiology. 85, 7, e00052-19.

Research output: Contribution to journal › Article › peer-review

Open Access

Genome of ‘Charleston Gray’, the principal American watermelon cultivar, and genetic characterization of 1,365 accessions in the U.S. National Plant Germplasm System watermelon collection

Wu, S., Wang, X., Reddy, U., Sun, H., Bao, K., Gao, L., Mao, L., Patel, T., Ortiz, C., Abburi, V. L., Nimmakayala, P., Branham, S., Wechter, P., Massey, L., Ling, K. S., Kousik, C., Hammar, S. A., Tadmor, Y., Portnoy, V., Gur, A. & 13 others, Katzir, N., Guner, N., Davis, A., Hernandez, A. G., Wright, C. L., McGregor, C., Jarret, R., Zhang, X., Xu, Y., Wehner, T. C., Grumet, R., Levi, A. & Fei, Z., Dec 1 2019, In: Plant Biotechnology Journal. 17, 12, p. 2246-2258 13 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Physiology, Metabolism, and Fossilization of Hot-Spring Filamentous Microbial Mats

Dong, Y., Sanford, R. A., Inskeep, W. P., Srivastava, V., Bulone, V., Fields, C. J., Yau, P. M., Sivaguru, M., Ahrén, D., Fouke, K. W., Weber, J., Werth, C. R., Cann, I. K., Keating, K. M., Khetani, R. S., Hernandez, A. G., Wright, C., Band, M., Imai, B. S., Fried, G. A. & 1 others, Fouke, B. W., Dec 2019, In: Astrobiology. 19, 12, p. 1442-1458 17 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Sex-dependent dominance maintains migration supergene in rainbow trout

Pearse, D. E., Barson, N. J., Nome, T., Gao, G., Campbell, M. A., Abadía-Cardoso, A., Anderson, E. C., Rundio, D. E., Williams, T. H., Naish, K. A., Moen, T., Liu, S., Kent, M., Moser, M., Minkley, D. R., Rondeau, E. B., Brieuc, M. S. O., Sandve, S. R., Miller, M. R., Cedillo, L. & 12 others, Baruch, K., Hernandez, A. G., Ben-Zvi, G., Shem-Tov, D., Barad, O., Kuzishchin, K., Garza, J. C., Lindley, S. T., Koop, B. F., Thorgaard, G. H., Palti, Y. & Lien, S., Dec 1 2019, In: Nature Ecology and Evolution. 3, 12, p. 1731-1742 12 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Transcriptome analysis of egg viability in rainbow trout, Oncorhynchus mykiss

Ma, H., Martin, K., Dixon, D., Hernandez, A. G. & Weber, G. M., Apr 27 2019, In: BMC genomics. 20, 1, 319.

Research output: Contribution to journal › Article › peer-review

Open Access

2018

Bile acid oxidation by Eggerthella lenta strains C592 and DSM 2243^T

Harris, S. C., Devendran, S., Méndez- García, C., Mythen, S. M., Wright, C. L., Fields, C. J., Hernandez, A. G., Cann, I., Hylemon, P. B. & Ridlon, J. M., Nov 2 2018, In: Gut Microbes. 9, 6, p. 523-539 17 p.

Research output: Contribution to journal › Article › peer-review

Expression of FLOWERING LOCUS C and a frameshift mutation of this gene on chromosome 20 differentiate a summer and winter annual biotype of Camelina sativa

Anderson, J. V., Horvath, D. P., Doğramaci, M., Dorn, K. M., Chao, W. S., Watkin, E. E., Hernandez, A. G., Marks, M. D. & Gesch, R., Jul 2018, In: Plant Direct. 2, 7, e00060.

Research output: Contribution to journal › Article › peer-review

Open Access

Gene network dysregulation in the trigeminal ganglia and nucleus accumbens of a model of chronic migraine-associated hyperalgesia

Jeong, H., Moye, L. S., Southey, B. R., Hernandez, A. G., Dripps, I., Romanova, E. V., Rubakhin, S. S., Sweedler, J. V., Pradhan, A. A. & Rodriguez-Zas, S. L., Dec 18 2018, In: Frontiers in Systems Neuroscience. 12, 63.

Research output: Contribution to journal › Article › peer-review

Open Access

Weed presence altered biotic stress and light signaling in maize even when weeds were removed early in the critical weed-free period

Horvath, D. P., Bruggeman, S., Moriles-Miller, J., Anderson, J. V., Dogramaci, M., Scheffler, B. E., Hernandez, A. G., Foley, M. E. & Clay, S., Apr 2018, In: Plant Direct. 2, 4, e00057.

Research output: Contribution to journal › Article › peer-review

Open Access

2017

Foliar glyphosate treatment alters transcript and hormone profiles in crown buds of leafy spurge and induces dwarfed and bushy phenotypes throughout its perennial lifecycle

Doğramaci, M., Anderson, J. V., Chao, W. S., Horvath, D. P., Hernandez, A. G., Mikel, M. A. & Foley, M. E., Nov 2017, In: Plant Genome. 10, 3

Research output: Contribution to journal › Article › peer-review

Similar genetic architecture with shared and unique quantitative trait loci for bacterial cold water disease resistance in two rainbow trout breeding populations

Vallejo, R. L., Liu, S., Gao, G., Fragomeni, B. O., Hernandez, A. G., Leeds, T. D., Parsons, J. E., Martin, K. E., Evenhuis, J. P., Welch, T. J., Wiens, G. D. & Palti, Y., Oct 23 2017, In: Frontiers in Genetics. 8, OCT, 156.

Research output: Contribution to journal › Article › peer-review

Whole genome comparative analysis of four Georgian grape cultivars

Tabidze, V., Pipia, I., Gogniashvili, M., Kunelauri, N., Ujmajuridze, L., Pirtskhalava, M., Vishnepolsky, B., Hernandez, A. G., Fields, C. J. & Beridze, T., Dec 1 2017, In: Molecular Genetics and Genomics. 292, 6, p. 1377-1389 13 p.

Research output: Contribution to journal › Article › peer-review

Wild emmer genome architecture and diversity elucidate wheat evolution and domestication

Avni, R., Nave, M., Barad, O., Baruch, K., Twardziok, S. O., Gundlach, H., Hale, I., Mascher, M., Spannagl, M., Wiebe, K., Jordan, K. W., Golan, G., Deek, J., Ben-Zvi, B., Ben-Zvi, G., Himmelbach, A., Maclachlan, R. P., Sharpe, A. G., Fritz, A., Ben-David, R. & 28 others, Budak, H., Fahima, T., Korol, A., Faris, J. D., Hernandez, A., Mikel, M. A., Levy, A. A., Steffenson, B., Maccaferri, M., Tuberosa, R., Cattivelli, L., Faccioli, P., Ceriotti, A., Kashkush, K., Pourkheirandish, M., Komatsuda, T., Eilam, T., Sela, H., Sharon, A., Ohad, N., Chamovitz, D. A., Mayer, K. F. X., Stein, N., Ronen, G., Peleg, Z., Pozniak, C. J., Akhunov, E. D. & Distelfeld, A., Jul 7 2017, In: Science. 357, 6346, p. 93-97 5 p.

Research output: Contribution to journal › Article › peer-review

2016

Capturing one of the human gut microbiome's most wanted: Reconstructing the genome of a novel butyrate-producing, clostridial scavenger from metagenomic sequence data

Jeraldo, P., Hernandez, A., Nielsen, H. B., Chen, X., White, B. A., Goldenfeld, N., Nelson, H., Alhquist, D., Boardman, L. & Chia, N., 2016, In: Frontiers in Microbiology. 7, MAY, 783.

Research output: Contribution to journal › Article › peer-review

Open Access

Cerebellum transcriptome of mice bred for high voluntary activity offers insights into locomotor control and reward-dependent behaviors

Caetano-Anollés, K., Rhodes, J. S., Garland, T., Perez, S. D., Hernandez, A. G., Southey, B. R. & Rodriguez-Zas, S. L., Nov 2016, In: PloS one. 11, 11, e0167095.

Research output: Contribution to journal › Article › peer-review

Open Access

Differential transcriptome networks between IDO1-Knockout and wild-type mice in brain microglia and macrophages

Gonzalez-Pena, D., Nixon, S. E., Southey, B. R., Lawson, M. A., McCusker, R. H., Hernandez, A. G., Dantzer, R., Kelley, K. W. & Rodriguez-Zas, S. L., Jun 2016, In: PloS one. 11, 6, e0157727.

Research output: Contribution to journal › Article › peer-review

Draft assembly of elite inbred line PH207 provides insights into genomic and transcriptome diversity in maize

Hirsch, C. N., Hirsch, C. D., Brohammer, A. B., Bowman, M. J., Soifer, I., Barad, O., Shem-Tov, D., Baruch, K., Lu, F., Hernandez, A. G., Fields, C. J., Wright, C. L., Koehler, K., Springer, N. M., Buckler, E., Buell, C. R., de Leon, N., Kaeppler, S. M., Childs, K. L. & Mikel, M. A., Nov 2016, In: Plant Cell. 28, 11, p. 2700-2714 15 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Evaluation of genome-enabled selection for bacterial cold water disease resistance using progeny performance data in rainbow trout: Insights on genotyping methods and genomic prediction models

Vallejo, R. L., Leeds, T. D., Fragomeni, B. O., Gao, G., Hernandez, A. G., Misztal, I., Welch, T. J., Wiens, G. D. & Palti, Y., May 27 2016, In: Frontiers in Genetics. 7, MAY, 96.

Research output: Contribution to journal › Article › peer-review

Microglia transcriptome changes in a model of depressive behavior after immune challenge

Gonzalez-Pena, D., Nixon, S. E., O'Connor, J. C., Southey, B. R., Lawson, M. A., McCusker, R. H., Borras, T., Machuca, D., Hernandez, A. G., Dantzer, R., Kelley, K. W. & Rodriguez-Zas, S. L., Mar 2016, In: PloS one. 11, 3, e0150858.

Research output: Contribution to journal › Article › peer-review

The biosynthetic pathway of the nonsugar, high-intensity sweetener mogroside V from Siraitia grosvenorii

Itkin, M., Davidovich-Rikanati, R., Cohen, S., Portnoy, V., Doron-Faigenboim, A., Oren, E., Freilich, S., Tzuri, G., Baranes, N., Shen, S., Petreikov, M., Sertchook, R., Ben-Dor, S., Gottlieb, H., Hernandez, A., Nelson, D. R., Paris, H. S., Tadmor, Y., Burger, Y., Lewinsohn, E. & 2 others, Katzir, N. & Schaffer, A., Nov 22 2016, In: Proceedings of the National Academy of Sciences of the United States of America. 113, 47, p. E7619-E7628

Research output: Contribution to journal › Article › peer-review

2015

Analytical workflow profiling gene expression in murine macrophages

Nixon, S. E., Gonzalez-Peña, D., Lawson, M. A., McCusker, R. H., Hernandez, A. G., O'Connor, J. C., Dantzer, R., Kelley, K. W. & Rodriguez-Zas, S. L., Apr 25 2015, In: Journal of Bioinformatics and Computational Biology. 13, 2, 1550010.

Research output: Contribution to journal › Article › peer-review

Detection and validation of QTL affecting bacterial cold water disease resistance in rainbow trout using restriction-site associated DNA sequencing

Palti, Y., Vallejo, R. L., Gao, G., Liu, S., Hernandez, A. G., Rexroad, C. E. & Wiens, G. D., Sep 16 2015, In: PloS one. 10, 9, e0138435.

Research output: Contribution to journal › Article › peer-review

Open Access

Draft genome sequences of 24 microbial strains assembled from direct sequencing from 4 stool samples

Jeraldo, P., Hernández, Á., White, B. A., O'Brien, D., Ahlquist, D., Boardman, L. & Chia, N., 2015, In: Genome Announcements. 3, 3, e00526-15.

Research output: Contribution to journal › Article › peer-review

Open Access

Genomic signatures of evolutionary transitions from solitary to group living

Kapheim, K. M., Pan, H., Li, C., Salzberg, S. L., Puiu, D., Magoc, T., Robertson, H. M., Hudson, M. E., Venkat, A., Fischman, B. J., Hernandez, A., Yandell, M., Ence, D., Holt, C., Yocum, G. D., Kemp, W. P., Bosch, J., Waterhouse, R. M., Zdobnov, E. M., Stolle, E. & 32 others, Kraus, F. B., Helbing, S., Moritz, R. F. A., Glastad, K. M., Hunt, B. G., Goodisman, M. A. D., Hauser, F., Grimmelikhuijzen, C. J. P., Pinheiro, D. G., Nunes, F. M. F., Soares, M. P. M., Tanaka, É. D., Simões, Z. L. P., Hartfelder, K., Evans, J. D., Barribeau, S. M., Johnson, R. M., Massey, J. H., Southey, B. R., Hasselmann, M., Hamacher, D., Biewer, M., Kent, C. F., Zayed, A., Blatti, C., Sinha, S., Johnston, J. S., Hanrahan, S. J., Kocher, S. D., Wang, J., Robinson, G. E. & Zhang, G., Jun 5 2015, In: Science. 348, 6239, p. 1139-1143 5 p.

Research output: Contribution to journal › Article › peer-review

Glyphosate's impact on vegetative growth in leafy spurge identifies molecular processes and hormone cross-talk associated with increased branching

Doğramaci, M., Foley, M. E., Horvath, D. P., Hernandez, A. G., Khetani, R. S., Fields, C. J., Keating, K. M., Mikel, M. A. & Anderson, J. V., Dec 12 2015, In: BMC genomics. 16, 1, 395.

Research output: Contribution to journal › Article › peer-review

High-resolution genetic mapping of maize pan-genome sequence anchors

Lu, F., Romay, M. C., Glaubitz, J. C., Bradbury, P. J., Elshire, R. J., Wang, T., Li, Y., Li, Y., Semagn, K., Zhang, X., Hernandez, A. G., Mikel, M. A., Soifer, I., Barad, O. & Buckler, E. S., Apr 16 2015, In: Nature communications. 6, 6914.

Research output: Contribution to journal › Article › peer-review

Identification of single nucleotide polymorphism markers associated with bacterial cold water disease resistance and spleen size in rainbow trout

Liu, S., Vallejo, R. L., Palti, Y., Gao, G., Marancik, D. P., Hernandez, A. G. & Wiens, G. D., 2015, In: Frontiers in Genetics. 6, SEP, 298.

Research output: Contribution to journal › Article › peer-review

Identification of Single-Nucleotide Polymorphism Markers Associated with Cortisol Response to Crowding in Rainbow Trout

Liu, S., Vallejo, R. L., Gao, G., Palti, Y., Weber, G. M., Hernandez, A. G. & Rexroad, C. E., Jun 1 2015, In: Marine Biotechnology. 17, 3, p. 328-337 10 p.

Research output: Contribution to journal › Article › peer-review

Plasma exosomal miRNAs in persons with and without Alzheimer disease: Altered expression and prospects for biomarkers

Lugli, G., Cohen, A. M., Bennett, D. A., Shah, R. C., Fields, C. J., Hernandez, A. G. & Smalheiser, N. R., Oct 1 2015, In: PloS one. 10, 10, e0139233.

Research output: Contribution to journal › Article › peer-review

Open Access

The genomes of two key bumblebee species with primitive eusocial organization

Sadd, B. M., Barribeau, S. M., Bloch, G., de Graaf, D. C., Dearden, P., Elsik, C. G., Gadau, J., Grimmelikhuijzen, C. J. P., Hasselmann, M., Lozier, J. D., Robertson, H. M., Smagghe, G., Stolle, E., Van Vaerenbergh, M., Waterhouse, R. M., Bornberg-Bauer, E., Klasberg, S., Bennett, A. K., Câmara, F., Guigó, R. & 124 others, Hoff, K., Mariotti, M., Munoz-Torres, M., Murphy, T., Santesmasses, D., Amdam, G. V., Beckers, M., Beye, M., Biewer, M., Bitondi, M. M. G., Blaxter, M. L., Bourke, A. F. G., Brown, M. J. F., Buechel, S. D., Cameron, R., Cappelle, K., Carolan, J. C., Christiaens, O., Ciborowski, K. L., Clarke, D. F., Colgan, T. J., Collins, D. H., Cridge, A. G., Dalmay, T., Dreier, S., du Plessis, L., Duncan, E., Erler, S., Evans, J., Falcon, T., Flores, K., Freitas, F. C. P., Fuchikawa, T., Gempe, T., Hartfelder, K., Hauser, F., Helbing, S., Humann, F. C., Irvine, F., Jermiin, L. S., Johnson, C. E., Johnson, R. M., Jones, A. K., Kadowaki, T., Kidner, J. H., Koch, V., Köhler, A., Kraus, F. B., Lattorff, H. M. G., Leask, M., Lockett, G. A., Mallon, E. B., Antonio, D. S. M., Marxer, M., Meeus, I., Moritz, R. F. A., Nair, A., Näpflin, K., Nissen, I., Niu, J., Nunes, F. M. F., Oakeshott, J. G., Osborne, A., Otte, M., Pinheiro, D. G., Rossié, N., Rueppell, O., Santos, C. G., Schmid-Hempel, R., Schmitt, B. D., Schulte, C., Simões, Z. L. P., Soares, M. P. M., Swevers, L., Winnebeck, E. C., Wolschin, F., Yu, N., Zdobnov, E. M., Aqrawi, P. K., Blankenburg, K. P., Coyle, M., Francisco, L., Hernandez, A. G., Holder, M., Hudson, M. E., Jackson, L. R., Jayaseelan, J., Joshi, V., Kovar, C., Lee, S. L., Mata, R., Mathew, T., Newsham, I. F., Ngo, R., Okwuonu, G., Pham, C., Pu, L. L., Saada, N., Santibanez, J., Simmons, D. N., Thornton, R., Venkat, A., Walden, K. K. O., Wu, Y. Q., Debyser, G., Devreese, B., Asher, C., Blommaert, J., Chipman, A. D., Chittka, L., Fouks, B., Liu, J., O'Neill, M. P., Sumner, S., Puiu, D., Qu, J., Salzberg, S. L., Scherer, S. E., Muzny, D. M., Richards, S., Robinson, G. E., Gibbs, R. A., Schmid-Hempel, P. & Worley, K. C., Apr 24 2015, In: Genome biology. 16, 1, 76.

Research output: Contribution to journal › Article › peer-review

Open Access

The pineapple genome and the evolution of CAM photosynthesis

Ming, R., VanBuren, R., Wai, C. M., Tang, H., Schatz, M. C., Bowers, J. E., Lyons, E., Wang, M. L., Chen, J., Biggers, E., Zhang, J., Huang, L., Zhang, L., Miao, W., Zhang, J., Ye, Z., Miao, C., Lin, Z., Wang, H., Zhou, H. & 50 others, Yim, W. C., Priest, H. D., Zheng, C., Woodhouse, M., Edger, P. P., Guyot, R., Guo, H. B., Guo, H., Zheng, G., Singh, R., Sharma, A., Min, X., Zheng, Y., Lee, H., Gurtowski, J., Sedlazeck, F. J., Harkess, A., McKain, M. R., Liao, Z., Fang, J., Liu, J., Zhang, X., Zhang, Q., Hu, W., Qin, Y., Wang, K., Chen, L. Y., Shirley, N., Lin, Y. R., Liu, L. Y., Hernandez, A. G., Wright, C. L., Bulone, V., Tuskan, G. A., Heath, K., Zee, F., Moore, P. H., Sunkar, R., Leebens-Mack, J. H., Mockler, T., Bennetzen, J. L., Freeling, M., Sankoff, D., Paterson, A. H., Zhu, X., Yang, X., Smith, J. A. C., Cushman, J. C., Paull, R. E. & Yu, Q., Dec 1 2015, In: Nature Genetics. 47, 12, p. 1435-1442 8 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Whole-body transcriptome of selectively bred, resistant-, control-, and susceptible-line rainbow trout following experimental challenge with Flavobacterium psychrophilum

Marancik, D., Gao, G., Paneru, B., Ma, H., Hernandez, A. G., Salem, M., Yao, J., Palti, Y. & Wiens, G. D., 2015, In: Frontiers in Genetics. 5, JAN, 453.

Research output: Contribution to journal › Article › peer-review

2014

Halomonas sulfidaeris-dominated microbial community inhabits a 1.8 km-deep subsurface Cambrian sandstone reservoir

Dong, Y., Kumar, C. G., Chia, N., Kim, P. J., Miller, P. A., Price, N. D., Cann, I. K. O., Flynn, T. M., Sanford, R. A., Krapac, I. G., Locke, R. A., Hong, P. Y., Tamaki, H., Liu, W. T., Mackie, R. I., Hernandez, A. G., Wright, C. L., Mikel, M. A., Walker, J. L., Sivaguru, M. & 3 others, Fried, G., Yannarell, A. C. & Fouke, B. W., 2014, In: Environmental Microbiology. 16, 6, p. 1695-1708 14 p.

Research output: Contribution to journal › Article › peer-review

The complete chloroplast DNA sequence of eleven grape cultivars. Simultaneous resequencing methodology

Tabidze, V., Baramidze, G., Pipia, I., Gogniashvili, M., Ujmajuridze, L., Beridze, T., Hernandez, A. G. & Schaal, B., 2014, In: Journal International des Sciences de la Vigne et du Vin. 48, 2, p. 99-109 11 p.

Research output: Contribution to journal › Article › peer-review

Open Access

Transcriptional profiling of the spleen in progressive visceral leishmaniasis reveals mixed expression of type 1 and type 2 cytokine-responsive genes

Espitia, C. M., Saldarriaga, O. A., Travi, B. L., Osorio, E. Y., Hernandez, A., Band, M., Patel, M. J., Medina, A. A., Cappello, M., Pekosz, A. & Melby, P. C., Nov 26 2014, In: BMC Immunology. 15, 1, 38.

Research output: Contribution to journal › Article › peer-review

2013

Ancient DNA Analysis of Mid-Holocene Individuals from the Northwest Coast of North America Reveals Different Evolutionary Paths for Mitogenomes

Cui, Y., Lindo, J., Hughes, C. E., Johnson, J. W., Hernandez, A. G., Kemp, B. M., Ma, J., Cunningham, R., Petzelt, B., Mitchell, J., Archer, D., Cybulski, J. S. & Malhi, R. S., Jul 3 2013, In: PloS one. 8, 7, e66948.

Research output: Contribution to journal › Article › peer-review

2012

Auxin and ABA act as central regulators of developmental networks associated with paradormancy in Canada thistle (Cirsium arvense)

Anderson, J. V., Doğramacı, M., Horvath, D. P., Foley, M. E., Chao, W. S., Suttle, J. C., Thimmapuram, J., Hernandez, A. G., Ali, S. & Mikel, M. A., Aug 2012, In: Functional and Integrative Genomics. 12, 3, p. 515-531 17 p.

Research output: Contribution to journal › Article › peer-review

Alvaro Gonzalo Hernandez

Research output

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