Evidence map›Paper›PMID 33985425›Full record

ArticleBMC genomics2021

Species and population specific gene expression in blood transcriptomes of marine turtles.

Shreya M Banerjee, Jamie Adkins Stoll, Camryn D Allen, Jennifer M Lynch, Heather S Harris, Lauren Kenyon, Richard E Connon, Eleanor J Sterling, Eugenia Naro-Maciel, Kathryn McFadden and 15 more

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in BMC genomics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.

0numbers the graph read from it
0cells of the map it votes in
10citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

10 citing papers in PubMed.

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4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

25 authors.

Shreya M BanerjeeDepartment of Environmental Conservation, University of Massachusetts, Amherst, MA, USA.
Jamie Adkins StollDepartment of Environmental Conservation, University of Massachusetts, Amherst, MA, USA.
Camryn D AllenMarine Turtle Biology and Assessment Program, Protected Species Division, Pacific Islands Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, Honolulu, HI, USA.
Jennifer M LynchChemical Sciences Division, National Institute of Standards and Technology, Hawai'i Pacific University, Waimanalo, HI, USA.
Heather S HarrisMarine Mammal and Turtle Division, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, La Jolla, CA, USA.
Lauren KenyonDepartment of Environmental Conservation, University of Massachusetts, Amherst, MA, USA.
Richard E ConnonDepartment of Anatomy, Physiology and Cell Biology, University of California, Davis, Davis, CA, USA.
Eleanor J SterlingCenter for Biodiversity and Conservation, American Museum of Natural History, New York, NY, USA.
Eugenia Naro-MacielNew York University, New York, NY, USA.
Kathryn McFaddenSchool of Agricultural, Forest, and Environmental Sciences, Clemson University, Clemson, SC, USA.
Margaret M LamontUnited States Geological Survey, Wetland and Aquatic Research Center, Gainesville, FL, USA.
James BengeSection of Molecular Biology, Division of Biological Sciences, University of California, San Diego, La Jolla, CA, USA.
Nadia B FernandezDepartment of Environmental Conservation, University of Massachusetts, Amherst, MA, USA.
Jeffrey A SeminoffMarine Mammal and Turtle Division, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, La Jolla, CA, USA.
Scott R BensonMarine Mammal and Turtle Division, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, Moss Landing, CA, 95039, USA.
Rebecca L LewisonDepartment of Biology, San Diego State University, San Diego, CA, USA.
Tomoharu EguchiMarine Mammal and Turtle Division, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, La Jolla, CA, USA.
Tammy M SummersRainbow Connection Research, Guam, USA.
Jessy R HapdeiJessy's Tag Services, Saipan, Commonwealth of the Northern Mariana Islands, USA.
Marc R RiceHawai'i Preparatory Academy, Kamuela, HI, USA.
Summer MartinMarine Turtle Biology and Assessment Program, Protected Species Division, Pacific Islands Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, Honolulu, HI, USA.
T Todd JonesMarine Turtle Biology and Assessment Program, Protected Species Division, Pacific Islands Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, Honolulu, HI, USA.
Peter H DuttonMarine Mammal and Turtle Division, Southwest Fisheries Science Center, National Marine Fisheries Service, National Oceanic and Atmospheric Administration, La Jolla, CA, USA.
George H BalazsGolden Honu Services of Oceania, Honolulu, HI, USA.
Lisa M KomoroskeDepartment of Environmental Conservation, University of Massachusetts, Amherst, MA, USA. lkomoroske@umass.edu.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

backgroundTranscriptomic data has demonstrated utility to advance the study of physiological diversity and organisms' responses to environmental stressors. However, a lack of genomic resources and challenges associated with collecting high-quality RNA can limit its application for many wild populations. Minimally invasive blood sampling combined with de novo transcriptomic approaches has great potential to alleviate these barriers. Here, we advance these goals for marine turtles by generating high quality de novo blood transcriptome assemblies to characterize functional diversity and compare global transcriptional profiles between tissues, species, and foraging aggregations.

resultsWe generated high quality blood transcriptome assemblies for hawksbill (Eretmochelys imbricata), loggerhead (Caretta caretta), green (Chelonia mydas), and leatherback (Dermochelys coriacea) turtles. The functional diversity in assembled blood transcriptomes was comparable to those from more traditionally sampled tissues. A total of 31.3% of orthogroups identified were present in all four species, representing a core set of conserved genes expressed in blood and shared across marine turtle species. We observed strong species-specific expression of these genes, as well as distinct transcriptomic profiles between green turtle foraging aggregations that inhabit areas of greater or lesser anthropogenic disturbance.

conclusionsObtaining global gene expression data through non-lethal, minimally invasive sampling can greatly expand the applications of RNA-sequencing in protected long-lived species such as marine turtles. The distinct differences in gene expression signatures between species and foraging aggregations provide insight into the functional genomics underlying the diversity in this ancient vertebrate lineage. The transcriptomic resources generated here can be used in further studies examining the evolutionary ecology and anthropogenic impacts on marine turtles.

Indexed as

TurtlesAnimalsBase SequenceSpecies SpecificityTranscriptomeComparative transcriptomicsConservation physiologyMinimally invasive samplingOrthologRNA-sequencingSea turtle

Identifiers

PMID33985425
PMCPMC8117300

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.