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Abstracts

​2022 - Aquaculture 2022, San Diego, California

​​A Bacteriophage cocktail as an alternative for the Control of vibrio parahaemolyticus responsible for AHPND in penaeus vannamei
a_bacteriophage_cocktail_as_an_alternative_for_the_control_of_vibrio_parahaemolyticus_responsible_for_ahpnd_in_penaeus_vannamei_juan_serrano.aquaculture_2022.pdf
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​A review of WSSV from Ecuador, WSSV-EVE & Nimav-1_Lva- their integration in the genomes of SPF P. vannamei
a_review_of_wssv_from_ecuador_wssv-eve___nimav-1_lva-_their_integration_in_the_genomes_of_spf_p._vannamei_1-27-22.pdf
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​A transposable element–epigenetics perspective to understand antimicrobial resistance (AMR) and contamination by EDCs like heavy metals, biocides, glyphosate, microplastics, Bis (2-Ethylhexyl) phthalate (Deph), and per- and poly- fluoroalkyl substances (PFAS): adaptation to global change.
a_transposable_element–epigenetics_perspective_to_understand_antimicrobial_resistance__amr__and_contamination_by_edcs_like_heavy_metals_biocides_glyphosate_microplastics.pdf
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Antimicrobial resistance (AMR) in aquaculture from a one health approach.​
antimicrobial_resistance__amr__in_aquaculture_from_a_one_health_approach.pdf
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​Aquaculture at the crossroads of global warming and antimicrobial resistance and the use of bioactive plants and algae as a sustainable alternative
aquaculture_at_the_crossroads_of_global_warming_and_antimicrobial_resistance_and_the_use_of_bioactive_plants_and_algae_as_a_sustainable_alternative.miriamreverter.aquaculture2022.pdf
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Assessment of the oxidative stress and bio-transformation enzymatic effects of glyphosate exposure on Penaeus Vannamei
​
assessment_of_the_oxidative_stress_and_bio-transformation_enzymatic_effects_of_glyphosate_exposure_on_penaeus_vannamei_final1-21-22.pdf
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​Chromosome locations of Rte-3 Lva Non-Ltr retrotransposon from SPF. Vannamei – a potential sex marker for shrimp
chromosome_locations_of_rte-3_lva_non-ltr_retrotransposon_from_spf_p._vannamei–_a_potential_sex_marker_for_shrimp_1-1-22.pdf
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​Endogenous viral elements (EVE) of Decapod Penstylhamaparvovirus 1 (infectious hypodermal and hematopoietic necrosis virus, IHHNV) – implications for shrimp diagnosis
endogenous_viral_elements__eve__of_decapod_penstylhamaparvovirus_1__infectious_hypodermal_and_hematopoietic_necrosis_virus_ihhnv__–_implications_for_shrimp_diagnosis.pdf
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Epigenetic regulation in aquatic micro-invertebrates- a non-canonical system of bacterial origin ​
epigenetic_regulation_in_aquatic_micro-invertebrates-_a_non-canonical_system_of_bacterial_origin.fernando.rodriguez.pdf
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From field to plate - agricultural pesticide presence in the Guayas estuary (Ecuador) and commercial mangrove crabs​
from_field_to_plate-_agricultural_pesticide_presence_in_the_guayas_estuary__ecuador__and_commercial_mangrove_crabs_andreedecock__1_.pdf
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​from mangrove to fork- metal presence in the Guayas estuary (Ecuador) and commercial mangrove crabs
from_mangrove_to_fork-_metal_presence_in_the_guayas_estuary__ecuador__and_commercial_mangrove_crabs.andree.aquaculture_2022.pdf
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​​Genome sequencing and assembly strategies and a comparative analysis of the genomic characteristics in penaeid shrimp species
genome_sequencing_and_assembly_strategies_and_a_comparative_analysis_of_the_genomic_characteristics_in_penaeid_shrimp_species.aquaculture_2022__1_.pdf
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​Gut microbiome dysbiosis in Danio rerio exposed to glyphosate
gut_microbiome_dysbiosis_in_danio_rerio_exposed_to_glyphosate_ibarra-mendoza_etalaquaculture_2022.pdf
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​Inhibitory capacity of a novel microbial enhanced protein against vibrio SPP. in P. Vannamei
inhibitory_capacity_of_a_novel_microbial_enhanced_protein_against_vibrio_spp._in_p.vannamei__nates_et_al_1-28-22.pdf
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​Neutral processes and salinity shape microbial community assembly in mangrove ecosystems along estuary
neutral_processes_and_salinity_shape_microbial_community_assembly_in_mangrove_ecosystems_along_estuary.pdf
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​One health epigenomes and microbiomes- from soil to people workshop
one_health_epigenomes_and_microbiomes-_from_soil_to_people_workshop_aquaculture_2022.pdf
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​One health epigenomics, wastewater-based epidemiology & antimicrobial resistance (AMR)- a role for glyphosate-based herbicides, bt, Vibrio sp.
one_health_epigenomics_wastewater-based_epidemiology___antimicrobial_resistance__amr_-_a_role_for_glyphosate-based_herbicides_bt_vibrio_sp..pdf
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​Pain in aquatic invertebrates – the questioning triad
pain_in_aquatic_invertebrates_–_the_questioning_triad_maria-antonia_aquaculture_2022.pdf
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​Preliminary survey of transposable elements in SPF P. Vannamei
preliminary_survey_of_transposable_elements_in_spf_p._vannamei.zuniga_alcivar-warren.aquaculture_2022..pdf
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​The complete genome of an endogenous nimavirus (Nimav-1_Lva)​
the_complete_genome_of_an_endogenous_nimavirus__nimav-1_lva___alcivar-warren_bao_shrimpencode_abstr_519__1_.pdf
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The hurdles of delivery CRISPR-Cas9  components for gene editing in penaeid shrimps ​
the_hurdles_of_delivery_crispr-cas9_components_for_gene_editing_in_penaeid_shrimps_liliana.aquaculture_2022..pdf
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The mangrove epigenome project of the FUCOBI foundation ​
the_mangrove_epigenome_project_of_the_fucobi_foundation.aquaculture_2022_san_diego.pdf
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The Nonltr-1_LVA Non-LTR retrotransposon from SPF van of US is similar to retrotransposon putatively assoc. with ASDD
the_nonltr-1_lva_non-ltr_retrotransposon_from_spf_pvan_of_the_us_is_similar_to_retrotransposon_putatively_assoc_with_asdd_1-1_22.pdf
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​The shrimpENCODE session
the_shrimpencode_session_abstract_revised_2-3-22.pdf
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​ ​The welfare concept – does it apply to shellfish, too​
the_welfare_concept_–_does_it_apply_to_shellfish_too_lauraurdes_aquaculture_2022..pdf
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​Understanding of the shrimp immune response to pathogens from its transcriptome. 
understanding_of_the_shrimp_immune_response_to_pathogens_from_its_transcriptome.dedonato..pdf
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Virus interference and occurrence in crustaceans 
​​
virus_interference_and_occurrence_in_crustaceans_cmeb_1-26-22.pdf
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2021 - National Shellfisheries Association 113th Annual Meeting

​Developmental and behavioral changes of the white shrimp litopenaeus setiferus under the exposure of phenylpyrazole fipronil.
ali_ameer_-_albadran_ali_poster_1.pdf
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Comparison of genomic DNA extraction methods in black tiger shrimp (Penaeus monodon​) for long-read genome sequencing.
pacharaporn_angthong_-_angthong_pacharaporn_poster.pdf
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Revisiting the repetitive sequence composition in two genome assemblies of Pacific oyster, Crassostrea gigas.
weidong_bao_-_bao_weidong_poster.pdf
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Data integration to define environmental and host factors impacting shrimp microbiota.
fernanda_cornejo_-_cornejo_fernanda_poster.pdf
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Assessment of the oxidative stress and bio-transformation enzymatic effects of glyphosate exposure on the pacific whiteleg shrimp penaeus (litopenaeus) vannamei.
dharshana_k_-_dharshana_final_poster-converted.pdf
File Size: 316 kb
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Convergent adaptation at multiple genomic levels among mangrove.
xiao_feng_-_shi_suhua_poster_2.pdf
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Spatial and temporal variations of atlantic surfclam (spisula solidissima) population demographic characteristics along the middle atlantic bight.
mauricio_gonzález_díaz_-_gonzalez-diaz_mauricio_session16.pdf
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White spot syndrome virus (WSSV) allows acute hepatopancreatic necrosis disease (AHPND) to cause faster and higher mortality in Pacific white shrimp (Penaeus vannamei).
jee_eun_han_-_han_jee_eun_poster.pdf
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Molecular detection of protozoan parasite infections in marine bivalves in Korean waters.
hye-mi_lee_-_lee_hye-mi_poster.pdf
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On the use and recycling of novel materials and energy by biodiversity in urbanized mangroves of the neotropic.
levy_donovan_obonaga_gomez_-_obonaga_levy_poster.pdf
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Mangrove Action Project -Standing at the roots of the sea ​
alfredo_quarto_-_map_nsa_poster.pdf
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Shrimp endogenous viral elements (eve) of infectious hypodermal and hematopoietic necrosis virus (IHHNV) and their implications for shrimp diagnosis.
vanvimon_saksmerprome_-_saksmerprome_vanvimon_poster__1_.pdf
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Synergistic effects of feeding and eyestalk ablation on ovarian maturation of the black tiger shrimp.
kanchana_sittikankaew_-_sittikankaew_kanchana_poster.pdf
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White spot syndrome virus (WSSV) allows acute hepatopancreatic necrosis disease (AHPND) to cause faster and higher mortality in Pacific white shrimp (Penaeus vannamei)
christie_soo_tze_chiew_-_soo_tze_chiew_christie_poster.pdf
File Size: 602 kb
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Discovery of genes and pathways related to reproduction of the black tiger shrimp (Penaeus monodon) through transcriptome analysis​
tanaporn_uengwetwanit_-_uengwetwanit_tanaporn_poster.pdf
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Acquiring day-one competency through the “fundamentals of aquatic veterinary medicine” learning resource.
laura_urdes_-_urdes_laura_poster.pdf
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Effects of live feed Perinereis nuntia on prostaglandin biosynthesis and fatty acid regulatory pathways in the black tiger shrimp Penaeus monodon.
wananit_wimuttisuk_-_wimuttisuk_wananit_poster.pdf
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A novel intriguing molecular mechanism of response to transition metals in diverse environments.
irina_yushenova_-_yushenova_irina_poster.pdf
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2019 - Aquaculture 2019, New Orleans, Louisiana

Microbial communities from mangroves soil and the influence of conversion to shrimp ponds on carbon stock and greenhouse gas emissions
poster_marcus_brazil.microbial_commun_mangroves__2_.pptx
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Role of PirBvp lectin and PirAvp toxin of Vibrio parahaemolyticus to promote the Acute Hepatopancreatic Necrosis Disease (AHPND) in shrimp via glycosylation-dependent PirBvp-receptor interactions
poster_-_marcelo_victorio-de_los_santos-was2019.pdf
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Gene body methylation plays a homeostatic role in stress adaption of extremophiles
nsa_2019_new_orleans_chenyiping_china_mangrove_gene_body_methylation.pdf
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2018 - National Shellfisheries Association 110th Annual Meeting, Seattle, Washington

Environmental, animal and public health effects of diesel: a photovoltaic renewable energy as an alternative to the conventional diesel system to pump water in shrimp farms of Ecuador focused on reducing carbon dioxide emissions
poster_genesis_solorzano_lis_herrerafinal.-comprimido.pdf
File Size: 553 kb
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2017 - ONE HEALTH Epigenomics and Microbiomes. from Soil to People Symposium, Framingham, Massachusetts

Status of Mangrove Forests in Honduras
poster_status_of_mangroves_in_honduras_mira_maude_chouinard.pdf
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Status of mangrove forests in Sinaloa, Mexico
poster_status_of_mangroves_forests_sinaloa_ruiz-luna.pdf
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How is shrimp farming impacting mangrove ecosystems in the Indo-Pacific?
poster_frank_david_-_how_is_shrimp_farming_impacting_mangroves_ecosustems_in_the_indo_paci_fic._framingham_2017.pdf
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203-2007 Abstracts and Posters

Characterization of 35 new microsatellite genetic markers for the Pacific whiteleg shrimp, litopenaeus vannamei: their usefulness for studying genetic diversity of wild and cultured stocks, tracing Pedigree in breeding programs, and linkage mapping proyecto UNA SALUD / ONE HEALTH

Published in Journal of Shellfish Research, Vol. 26, 2007
l._vannamei.pdf
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Characterization and Mapping of Expressed Sequence Tags Isolated from a Subtracted Cdna Library Of Litopenaeus Vannamei Injected With White Spot Syndrome Virus

Published in Marine Biotechnology, 2003
j_shellfish_res2007.pdf
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High frequency and large number of polymorphic Microsatellites in cultured shrimp, Penaeus (litopenaeus) vannamei [crustacea:decapoda] 

Published in Journal of Shellfish Research, Vol. 26, 2007
biotecnologa_marina.pdf
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Contributions To The International Marine Shrimp Environmental Genomics Initiative (IMSEGI): Monitoring Ecosystem, Animals And Public Health, 2000–2006 

Published in Journal of Shellfish Research, Vol. 26, 2007 ​
contributions_of_imsegi.2007_2.pdf
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​The Fucobi Foundation contributed to a recent publication by our collaborator, Dr. Acacia Alcivar-Warren. The results are part of ‘The shrimp epigenome (ShrimpENCODE) project’ of Fucobi’s Program ‘UNA SALUD / ONE HEALTH epigenomics and microbiomes: somos lo que comemos / we are what we eat’
 The Complete Genome of an Endogenous Nimavirus (Nimav-1_LVa) From the Pacific Whiteleg Shrimp Penaeus (Litopenaeus) Vannamei.


Bao W, Tang KFJ, Alcivar-Warren A. 2020. Genes (Basel). 2020 Jan 14;11(1). pii: E94. doi: 10.3390/genes11010094.


Author information
Bao W1, Tang KFJ2, Alcivar-Warren A3,4.
1 Genetic Information Research Institute (GIRI), 20380 Town Center Lane, Suite 240, Cupertino, CA 95014, USA.
2 Yellow Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, 106 Nanjing Road, Qingdao 266071, China.
3 Fundación para la Conservation de la Biodiversidad Acuática y Terrestre (FUCOBI), Quito EC1701, Ecuador.
4 Environmental Genomics Inc. (EGI), ONE HEALTH Epigenomics Educational Initiative, P. O. Box 196, Southborough, MA 01772, USA


Abstract
​

White spot syndrome virus (WSSV), the lone virus of the genus Whispovirus under the family Nimaviridae, is one of the most devastating viruses affecting the shrimp farming industry. Knowledge about this virus, in particular, its evolution history, has been limited, partly due to its large genome and the lack of other closely related free-living viruses for comparative studies. In this study, we reconstructed a full-length endogenous nimavirus consensus genome, Nimav-1_LVa (279,905 bp), in the genome sequence of Penaeus (Litopenaeus) vannamei breed Kehai No. 1 (ASM378908v1). This endogenous virus seemed to insert exclusively into the telomeric pentanucleotide microsatellite (TAACC/GGTTA)n. It encoded 117 putative genes, with some containing introns, such as g012 (inhibitor of apoptosis, IAP), g046 (crustacean hyperglycemic hormone, CHH), g155 (innexin), g158 (Bax inhibitor 1 like). More than a dozen Nimav-1_LVa genes are involved in the pathogen-host interactions. We hypothesized that g046, g155, g158, and g227 (semaphorin 1A like) were recruited host genes for their roles in immune regulation. Sequence analysis indicated that a total of 43 WSSV genes belonged to the ancestral/core nimavirus gene set, including four genes reported in this study: wsv112 (dUTPase), wsv206, wsv226, and wsv308 (nucleocapsid protein). The availability of the Nimav-1_LVa sequence would help understand the genetic diversity, epidemiology, evolution, and virulence of WSSV.

​IMPORTANT INFORMATION FOR THE SHRIMP AQUACULTURE INDUSTRY WORLDWIDE: AVAILABILITY OF A DIFFERENTIAL DIAGNOSTIC TOOL USEFUL FOR INTERNATIONAL TRADE CERTIFICATION AND OIE REGULATIONSThrough a partnership with EGI and GIRI, we are helping to develop a diagnostic tool to differentiate the infectious WSSV virus from the non-infectious endogenous nimavirus (previously called DNAV-1_LVa and WSSV-EVE). This differential diagnostics tool will be valuable to the shrimp aquaculture industry worldwide for international trade health certification and compliance with OIE regulations.

OTHER PUBLICATIONS BY DR. ALCIVAR-WARREN AND FUCOBI COLLABORATORS 

Peer-reviewed publications:

Zhang X, Yuan J, Sun Y, Li S, Gao Y, Yu Y, Liu C, Wang Q, Lv X, Zhang X, Ma KY, Wang X, Lin W, Wang L, Zhu X, Zhang C, Zhang J, Jin S, Yu K, Kong J, Xu P, Chen J, Zhang H, Sorgeloos P, Sagi A, Alcivar-Warren A, Liu Z, Wang L, Ruan J, Chu KH, Liu B, Li F, Xiang J. Penaeid shrimp genome provides insights into benthic adaptation and frequent molting. Nat Commun. 2019 Jan 21;10(1):356. doi: 10.1038/s41467-018-08197-4.
 
Aquaculture Genomics, Genetics and Breeding Workshop, Abdelrahman H, ElHady M, Alcivar-Warren A, Allen S, Al-Tobasei R, Bao L, Beck B, Blackburn H, Bosworth B, Buchanan J, Chappell J, Daniels W, Dong S, Dunham R, Durland E, Elaswad A, Gomez-Chiarri M, Gosh K, Guo X, et al. 2017. Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research. BMC Genomics. 2017 Feb 20;18(1):191. doi: 10.1186/s12864-017-3557-1. Review. Erratum in: BMC Genomics. 2017 Mar 16;18(1):235.
 
Alcivar-Warren A., Meehan-Meola D., Park S. W., Xu Z., Delaney M., Zuniga G. (2007). ShrimpMap: A low-density, microsatellite-based linkage map of the pacific whiteleg shrimp, Litopenaeus vannamei: Identification of sex-linked markers in linkage group 4. J. Shellfish Res. 26, 1259–1277.
 
Alcivar-Warren A., Xu Z., Meehan D., Zuniga G., Bell K. (2003). Over 150 polymorphic microsatellite markers available for parentage testing, pedigree tracing, genetic diversity and genome mapping of the Pacific White Shrimp, Penaeus (Litopenaeus) vannamei, in Aquaculture America (Louisville, KY: ).
 
Alcivar-Warren A, Meehan-Meola D, Wang Y, Guo X, Zhou L, Xiang J, Moss S, Arce S, Warren W, Xu Z, Bell K. 2006. Isolation and Mapping of Telomeric Pentanucleotide (TAACC)n Repeats of the Pacific Whiteleg Shrimp, Penaeus vannamei, Using Fluorescence In Situ Hybridization. Mar Biotechnol (NY) 8(5):467–480. doi: 10.1007/s10126-005-6031-z. Erratum in: Mar Biotechnol (NY). 2006 Nov-Dec;8(6):697-8.
 
Reville, C., Al-Beik, J., Meehan-Meola, D., Xu, Z., Goldsmith, M.L., Rand, W. and Alcivar-Warren, A. 2005. White Spot Syndrome Virus in Frozen Shrimp Sold at Massachusetts Supermarkets. J. Shellfish Res. 24 (1), 285-290.
 
Alcivar-Warren A, Overstreet RM, Dhar AK, Astrofsky K, Carr WH, Sweeney J, Lotz JM. Genetic susceptibility of cultured shrimp (Penaeus vannamei) to infectious hypodermal and hematopoietic necrosis virus and Baculovirus penaei: possible relationship with growth status and metabolic gene expression. J Invertebr Pathol. 1997;70(3):190–197. doi: 10.1006/jipa.1997.4692.
 
Alcivar-Warren A, Trasler JM, Awoniyi CA, Zirkin BR, Hecht NB. 1996. Differential expression of ornithine decarboxylase, poly(ADP)ribose polymerase, and mitochondrial mRNAs following testosterone administration to hypophysectomized rats.Mol Reprod Dev. 1996 Mar;43(3):283-9.
 
Dhar AK, Thompson MS, Paradis MR, Alcivar-Warren A. 2000. Determination of the cDNA sequence and mRNA expression of interleukin-1 receptor antagonist in horses. Am J Vet Res. 2000 Aug;61(8):920-4.
 
Eaton JK, Alcivar-Warren A, Kenny JE. 2012. Multidimensional fluorescence fingerprinting for classification of shrimp by location and species. Environ Sci Technol. 2012 Feb 21;46(4):2276-82. doi: 10.1021/es2037542. Epub 2012 Feb 9.
 
Garcia DK., Faggart MA., Rhoades L., Alcivar-Warren AA, Wyban JA, Carr WH, Sweeney JN, Ebert KM. 1994. Genetic diversity of cultured Penaeus vannamei shrimp using three molecular genetic techniques. Mol. Mar. Biol. Biotechnol. 3, 270–280.
 
Garcia DK, Dhar AK, Alcivar-Warren A. 1996. Molecular analysis of a RAPD marker (B20) reveals two microsatellites and differential mRNA expression in Penaeus vannamei. Mol Mar Biol Biotechnol. 1996 Mar;5(1):71-83.
 
Jue K, Benoit G, Alcivar-Warren AA, Trasler JM. 1995. Developmental and hormonal regulation of DNA methyltransferase in the rat testis. Biol Reprod. 1995 Jun;52(6):1364-71.
 
Meehan D, Xu Z, Zuniga G, Alcivar-Warren A. 2003. High frequency and large number of polymorphic microsatellites in cultured shrimp, Penaeus (Litopenaeus) vannamei [Crustacea:Decapoda]. Mar Biotechnol (NY). 2003 Jul-Aug;5(4):311-30.
 
Pascual I, Dhar AK, Fan Y, Paradis MR, Arruga MV, Alcivar-Warren A. 2002. Isolation of expressed sequence tags from a Thoroughbred horse (Equus caballus) 5'-RACE cDNA library. Anim Genet. 2002 Jun;33(3):231-2.
 
Xu Z, Dhar AK, Wyrzykowski J, Alcivar-Warren A. 1888. Identification of abundant and informative microsatellites from shrimp (Penaeus monodon) genome. Anim Genet. 1999 Apr;30(2):150-6.
 
Xu Z., Primavera J. H., de la Pena L. D., Pettit P., Belak J., Alcivar-Warren A.  2001. Genetic diversity of wild and cultured black tiger shrimp (Penaeus monodon) in the Philippines using microsatellites. Aquaculture 199, 13–40. 

ABSTRACTS PRESENTED AT THE WORLD AQUACULTURE SOCIETY MEETINGS FROM 1993 TO 2016 AVAILABLE SOON, AT SESSIONS CHAIRED BY DR. ACACIA ALCIVAR-WARREN.
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