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Older retrieved projects from AMD. Warning: many have incomplete information.
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Project Title/Abstract/Map NSF Award(s) Date Created PIs / Scientists Dataset Links and Repositories
ANT LIA: The Role of Sex Determination in the Radiation of Antarctic Notothenioid Fish

2232891
2023-08-14 Postlethwait, John; Desvignes, Thomas No dataset link provided
Evolution of hemoglobin genes in notothenioid fishes

2232891
1543383
1947040
2023-05-03 Desvignes, Thomas; Postlethwait, John
aBSREL tests for episodic diversifying selection on hemoglobin genes in notothenioids.
USAP-DC
Notothenioid hemoglobin protein 3D modeling.
USAP-DC
RELAX tests for pervasive changes in strength of natural selection on hemoglobin genes in notothenioids.
USAP-DC
MEME tests of sites evolving under episodic diversifying selection in notothenioid hemoglobin genes.
USAP-DC
Rates of hemoglobin evolution among genes and across notothenioid species.
USAP-DC
Phylogenetic trees of hemoglobin proteins in notothenioids.
USAP-DC
Notothenioid species tree used in the study.
USAP-DC
Evolutionary Genomic Responses in Antarctic Notothenioid Fishes

1645087
2022-10-10 Catchen, Julian; Cheng, Chi-Hing
Chromosome-Level Genome Assembly and Circadian Gene Repertoire of the Patagonia Blennie Eleginops maclovinus—The Closest Ancestral Proxy of Antarctic Cryonotothenioids
NCBI
Evaluating Illumina-, Nanopore-, and PacBio-based genome assembly strategies with the bald notothen, Trematomus borchgrevinki
NCBI
Evaluating Illumina-, Nanopore-, and PacBio-based genome assembly strategies with the bald notothen, Trematomus borchgrevinki
Dryad
Genomics of Secondarily Temperate Adaptation in the Only Non-Antarctic Icefish
NCBI
Analysis of Voltage-gated Ion Channels in Antarctic Fish

1443637
2022-06-03 Zakon, Harold
TagSeq tissue specific expression data for Antarctic Harpagifer antarcticus and tropical African cichlid Astatotilapia (Haplochromis) burtoni
GenBank
Evolutionary analysis of transient receptor potential (TRP) channels in notothenioid fishes
Texas Data Repository
Functional characterization of temperature activated ion channels from Antarctic fishes
USAP-DC
ANT LIA: Hypoxia Tolerance in Notothenioid Fishes

1954241
2021-08-17 O'Brien, Kristin No dataset link provided
Interacting Stressors: Metabolic Capacity to Acclimate under Ocean Warming and CO2- Acidification in Early Developmental Stages of Antarctic Fishes

1744999
2021-08-12 Todgham, Anne
A comparative and ontogenetic examination of mitochondrial function in Antarctic notothenioid species
USAP-DC
Differential temperature preferences exhibited in the juvenile Antarctic notothenioids Trematomus bernacchii and Trematomus pennellii
USAP-DC
EAGER: Origin and Physiological Consequences of a Neoplasm Outbreak in Antarctic Fish

1947040
2021-07-01 Postlethwait, John; Varsani, Arvind; Desvignes, Thomas
Histopathology of X-cell xenomas in Trematomus scotti and Nototheniops larseni.
USAP-DC
Morphological and pathological data of Trematomus scotti specimens captured on May 30th, 2018 in Andvord Bay.
USAP-DC
Temperature profiles at five fishing locations on the West Antarctic Peninsula during austral fall 2018.
USAP-DC
Fish pictures and skin pathology of X-cell infection in Trematomus scotti.
USAP-DC
Phylogenetic Analysis of Notoxcellia species.
USAP-DC
Metagenomic analysis of apparently healthy and tumor samples using Kaiju software
USAP-DC
microMRI analyses of Trematomus scotti Tsco_18_08 with X-cell xenomas
USAP-DC
In situ hybridization of X-cell and host fish 18S SSU rRNA in alternate sections of tumor xenomas.
USAP-DC
Trematomus scotti with X-cell xenomas
MorphoSource
18 SSU rDNA type sequences for Notoxcellia coronata (nov. sp.)
GenBank
18 SSU rDNA type sequences for Notoxcellia picta (nov. sp.)
GenBank
Raw Illumina sequencing reads from skin tumors and visually healthy skins from Trematomus scotti and Nototheniops larseni
NCBI SRA
Nomenclatural Act for the genus Notoxcellia
ZooBank
Nomenclatural Act for the species Notoxcellia coronata
ZooBank
Nomenclatural Act for the species Notoxcellia picta
ZooBank
Habitat Severity and Internal Ice in Antarctic Notothenioid Fishes

1644196
2020-12-15 Cziko, Paul; DeVries, Arthur
High-resolution nearshore benthic seawater temperature from around McMurdo Sound, Antarctica (2017-2019)
USAP-DC
Long-term underwater images from around a single mooring site in McMurdo Sound, Antarctica (2017-2019)
USAP-DC
Long-Term broadband underwater acoustic recordings from McMurdo Sound, Antarctica (2017-2019)
USAP-DC
Antarctic Notothenioid Fish Freeze Avoidance and Genome-wide Evolution for Life in the Cold

1142158
0231006
2020-04-08 Cheng, Chi-Hing; Devries, Arthur
High-resolution benthic seawater temperature record 1999-2012 (25-40m depth) from near intake jetty at McMurdo Station, Antarctica
USAP-DC
Phylogenomic Study of Adaptive Radiation in Antarctic Fishes

1341661
2020-02-29 Near, Thomas
Phylogenomics of Antarctic notothenioid fishes
USAP-DC
Phylogenomics of Antarctic notothenioid fishes
USAP-DC
Collaborative Research: The Physiological and Biochemical Underpinnings of Thermal Tolerance in Antarctic Notothenioid Fishes

1341663
1341602
2020-02-26 Crockett, Elizabeth; O'Brien, Kristin
Parachaenichthys charcoti HIF-1A mRNA, partial cds
GenBank
Eleginops maclovinus HIF-1A mRNA, partial cds
GenBank
Thermal sensitivity of membrane fluidity and integrity in hearts of Antarctic fishes that vary in expression of hemoglobin and myoglobin
USAP-DC
Notothenia coriiceps HIF-1A mRNA, complete cds
GenBank
Chaenocephalus aceratus HIF-1A mRNA, complete cds
GenBank
Physical, chemical, and functional properties of neuronal membranes vary between species of Antarctic notothenioids differing in thermal tolerance
Dryad
Measurements of splenic contraction in Antarctic fishes
USAP-DC
Mitochondrial membranes in cardiac muscle from Antarctic notothenioid fishes vary in phospholipid composition and membrane fluidity
Dryad
Maximum cardiac performance of Antarctic fishes that lack haemoglobin and myoglobin: exploring the effect of warming on nature’s natural knockouts
Dryad
Hypoxia response of hearts of Antarctic fishes
USAP-DC
Cardiac metabolism in Antarctic fishes in response to an acute increase in temperature
USAP-DC
Chionodraco rastrospinosus HIF-1A mRNA, partial cds
GenBank
Adrenergic and adenosinergic regulation of the cardiovascular system in the Antarctic icefish Chaenocephalus aceratus
USAP-DC
Gymnodraco acuticeps HIF-1A mRNA, partial cds
GenBank
Acclimation of cardiovascular function in Notothenia coriiceps
USAP-DC
Effects of acute warming on cardiovascular performance of Antarctic fishes
USAP-DC
Antarctic Fish and MicroRNA Control of Development and Physiology

1543383
2020-02-26 Postlethwait, John; Desvignes, Thomas
Patagonotothen sima isolate Psim_18_12 cytochrome oxidase subunit 1 (COI) gene, partial cds; mitochondrial
NCBI GenBank
mirtop command lines tool to annotate miRNAs with a standard mirna/isomir naming
GitHub
Prost!, a tool for miRNA annotation and next generation smallRNA sequencing experiment analysis
GitHub
Quantifying expression levels of smallRNAs between tissues in three-spined stickleback
NCBI SRA
Patagonotothen sima isolate Psim_18_11 cardiac muscle myosin heavy chain 6 (myh6) gene, partial cds
NCBI GenBank
Quantifying expression levels of smallRNAs between tissues in Danio Rerio strain AB.
NCBI SRA
Patagonotothen cornucola isolate Pcor_18_01 cytochrome oxidase subunit 1 (COI) gene, partial cds; mitochondrial
NCBI GenBank
C. aceratus pronephric kidney (head kidney) miRNA
NCBI SRA
Patagonotothen sima isolate Psim_18_11 cytochrome oxidase subunit 1 (COI) gene, partial cds; mitochondrial
NCBI GenBank
Antarctic Notothenioid Fishes: Sentinel Taxa for Southern Ocean Warming

1444167
2019-12-04 Detrich, H. William
E-MTAB-6759: RNA-seq across tissues in four Notothenioid species (Antarctic icefish)
Array Express
Histology-, CT-, ultrasound-, and MRI-scans (~2 TB) for Damsgaard et al. (2019)
eLife
Full raw data set, computer code, and evolutionary trajectories for all species in Damsgaard et al. (2019)
GitHub
Transposable element sequences and genome sizes, refs 142597 to MF142757
NCBI GenBank
Assembled Contig Dat for Daane et al. (2019)
Zenodo
PRJNA531677: Sequencing Data for Daane et al. (2019)
NCBI BioProject
SRP047484 RAD-tag Sequences of Genetically Mapped Notothenia coriiceps embryos
NCBI SRA
S-BSST132: Assembled Transcriptomes for Berthelot et al. (2018)
BioStudies
Expedition Data of LMG1803
R2R
Expedition Data of LMG1603
R2R
Expedition Data of LMG1804
R2R
Expedition Data of LMG1604
R2R
Expedition Data of LMG1605
R2R
Expedition Data of LMG1805
R2R
SRP118539: RAD-tag Sequences of Genetically Mapped Chaenocephalus aceratus Embryos
NCBI SRA
PRJNA420419: Genome and Transcriptome Data for Kim et al. (2019) Blackfin Icefish Genome
NCBI BioProject
RUI: Characterizing Protein Homeostasis and the Regulatory Mechanisms Controlling Molecular Chaperone Expression in the Highly Stenothermal Notothenioid Fish, Trematomus Bernacchii

1543419
2019-09-19 Place, Sean
miRNA Characterization in Antarctic fish
NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
No project link provided NCBI GenBank
Protein Folding and Embryogenesis in Antarctic Fishes: A Comparative Approach to Environmental Stress

1247510
2019-04-08 Detrich, H. William
Expedition Data
R2R
E-MTAB-6759: RNA-seq across tissues in four Notothenioid species (Antarctic icefish)
Array Express
S-BSST 132: Assembled Transcriptomes for Berthelot et al. (2018)
BioStudies
SRP047484: RAD-tag Sequences of Genetically Mapped Notothenia coriiceps Embryos
NCBI SRA
SRA091269: Notothenia coriiceps RNA Raw Sequence Reads
NCBI SRA
Expedition data of LMG1004
R2R
Expedition data of LMG1003
R2R
Expedition Data
R2R
SRP118539: RAD-tag Sequences of Genetically Mapped Chaenocephalus aceratus Embryos
NCBI SRA
PRJNA420419: Chaenocephalus aceratus Genome sequencing
NCBI BioProject
PRJNA66471: Notothenia coriiceps Genome Sequencing Notothenia coriiceps isolate:Sejong01 (black rockcod)
NCBI BioProject
Collaborative research: Redox Balance in Antarctic Notothenioid fishes: Do Icefishes have an Advantage?

1043781
1043576
2016-12-06 Crockett, Elizabeth; O'Brien, Kristin
Electronic fishing logs
USAP-DC
Expedition data of LMG1104
R2R
Redox Balance in Antarctic Notothenioid Fishes
USAP-DC
Ocean Acidification Category 1: Identifying Adaptive Responses of Polar Fishes in a Vulnerable Ecosystem

1447291
1040957
1040945
2015-01-12 Place, Sean; Sarmiento, Jorge; Dudycha, Jeffry; Kwon, Eun-Young
NCBI GenBank RNA sequences, Trematomus newnesi
NCBI GenBank
NCBI links to BioProjects of total RNA isolated from Trematomus bernacchii gill tissues acclimated to elevated temperature and pCO2, July 2015
BCO-DMO
NCBI GenBank RNA sequences, Pagothenia borchgrevinki
NCBI GenBank
Does the strength of the carbonate pump change with ocean stratification and acidification and how? Project data
BCO-DMO
NCBI GenBank RNA sequences, Trematomus bernacchii
NCBI GenBank
NCBI GenBank RNA sequences, Pagothenia borchgrevinki
NCBI GenBank
NCBI GenBank RNA sequences, Trematomus bernacchii
NCBI GenBank
NCBI GenBank RNA sequences, Trematomus newnesi
NCBI GenBank
PostDoctoral Research Fellowship

1019305
2014-02-10 Grim, Jeffrey
Impact of Rising Oceanic Temperatures on the Embryonic Development of Antarctic Notothenioid Fishes
USAP-DC
Collaborative Research: Linkages among Mitochondrial Form, Function and Thermal Tolerance of Antarctic Notothenioid Fishes

1142720
0741301
2013-11-30 Crockett, Elizabeth; O'Brien, Kristin
Linkages among Mitochondrial Form, Function and Thermal Tolerance of Antarctic Notothenioid Fishes
USAP-DC
Genomic Approaches to Resolving Phylogenies of Antarctic Notothenioid Fishes

0839007
2013-11-22 Near, Thomas
Genetic Sequence Data
NCBI GenBank
Cold Body Temperature as an Evolutionary Shaping force in the Physiology of Antarctic Fishes

0125890
2010-05-04 Sidell, Bruce; Detrich, H. William
Expedition data of LMG0304
R2R
Expedition Data
R2R
Expedition data of LMG0304A
R2R
Expedition data of LMG0304A
R2R
Expedition Data
R2R
Expedition Data
R2R
International Collaborative Expedition to Collect and Study Fish Indigenous to Sub-Antarctic Habitats

0132032
2010-05-04 Detrich, H. William
Expedition Data
R2R
Environmental, Organismal and Evolutionary Physiology of Freeze Avoidance in Antarctic Notothenioid Fishes

0636696
2010-05-04 Devries, Arthur
Expedition data of LMG0809
R2R
Expedition Data
R2R
Expedition Data
R2R
Proteins of Oxygen-Binding and Energy Metabolism in Muscles of Antarctic Fishes: Evolutionary Adjustments to Life at Cold Temperature

9909055
2010-05-04 Sidell, Bruce
Expedition Data
R2R
Expedition data of LMG0105
R2R
Collaborative Research: Differential Expression of Oxygen-binding Proteins in Antarctic Fishes Affects Nitric Oxide-mediated Pathways of Angiogenesis and Mitochondrial Biogenesis.

0437887
2009-12-06 Sidell, Bruce
Expedition data of LMG0705
R2R
Expedition Data
R2R
Expedition data of LMG0706
R2R
Differential Expression of Oxygen-binding Proteins in Antarctic Fishes Affects Nitric Oxide-mediated Pathways of Angiogenesis and Mitochondrial Biogenesis
USAP-DC
Biodiversity, Buoyancy and Morphological Studies of Non-Antarctic Notothenioid Fishes

0436190
2009-03-30 Eastman, Joseph
Biodiversity, Buoyancy and Morphological Studies of Non-Antarctic Notothenioid Fishes
USAP-DC