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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
ANT LIA: Hypoxia Tolerance in Notothenioid Fishes

1954241
2021-08-17 O'Brien, Kristin No dataset link provided
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
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
Evolutionary Fates of Hemoglobin and Heme Scavengers in White-blooded Antarctic Icefishes

1341701
2017-07-31 Bilyk, Kevin
Antarctic Ice fish; submission ID #SRP113562
NCBI GenBank
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
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
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
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