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Mirounga angustirostris strain:northern elephant seal

ABSTRACT: Mirounga angustirostris strain:northern elephant seal Transcriptome or Gene expression

PROVIDER: PRJNA258305 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR1554281_1.fastq.gz	Fastqsanger.gz
	SRR1554281_2.fastq.gz	Fastqsanger.gz
	SRR1554282_1.fastq.gz	Fastqsanger.gz
	SRR1554282_2.fastq.gz	Fastqsanger.gz
	SRR1554284_1.fastq.gz	Fastqsanger.gz

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Mirounga angustirostris

Project description:Mirounga angustirostris overview

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Molecular Population Genetics of the Northern Elephant Seal Mirounga angustirostris.

Project description:The northern elephant seal, Mirounga angustirostris, was heavily hunted and declared extinct in the 19th century. However, a colony remained on remote Guadalupe Island, Mexico and the species has since repopulated most of its historical distribution. Here, we present a comprehensive evaluation of genetic variation in the species. First, we assess the effect of the demographic bottleneck on microsatellite variability and compare it with that found in other pinnipeds, demonstrating levels of variation similar to that in species that continue to be threatened with extinction. Next, we use sequence data from these markers to demonstrate that some of the limited polymorphism predates the bottleneck. However, most contemporary variation appears to have arisen recently and persisted due to exponential growth. We also describe how we use the range in allele size of microsatellites to estimate ancestral effective population size before the bottleneck, demonstrating a large reduction in effective size. We then employ a classical method for bacteria to estimate the microsatellite mutation rate in the species, deriving an estimate that is extremely similar to that estimated for a similar set of loci in humans, indicating consistency of microsatellite mutation rates in mammals. Finally, we find slight significant structure between some geographically separated colonies, although its biological significance is unclear. This work demonstrates that genetic analysis can be useful for evaluating the population biology of the northern elephant seal, in spite of the bottleneck that removed most genetic variation from the species.

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Mirounga angustirostris

Project description:Mirounga angustirostris Genomic Resources

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Project description:Mirounga angustirostris Whole Genome Resequencing

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Northern elephant seal outer blubber layer proteome

Project description:Proteins were extracted from the outer (closer to skin) blubber layer of 4 northern elephant seals (Mirounga angustirostris) using either 1) A standard detergent lysis buffer containing 1% sodium deoxycholate, 8 M urea, 5 mM DTT in 50 mM ammonium bicarbonate (SDC method) or 2) the phenol and guanidine thiocyanate reagent Qiazol (QIA method). Mass spectrometry analysis was performed using an Orbitrap Fusion Tribrid mass spectrometer in DDA mode. Briefly, full MS1 scans were resolved by the orbitrap, and ions were selected for MS2 using DDA. These precursor ions were quadrupole filtered and subsequently fragmented using stepped collision HCD. MS2 product ions were resolved by the orbitrap. MS/MS data was analyzed using Proteome Discoverer v2.2.

2018-06-12 | MSV000082455 | MassIVE

Changes in Northern Elephant Seal Skeletal Muscle Following Thirty Days of Fasting and Reduced Activity

Project description:Northern elephant seals (NES, Mirounga angustirostris) undergo an annual molt during which they spend ~40 days fasting on land with reduced activity and lose approximately one-quarter of their body mass. Reduced activity and muscle load in stereotypic terrestrial mammalian models results in decreased muscle mass and capacity for force production and aerobic metabolism. However, the majority of lost mass in fasting female NES is from fat while muscle mass is largely preserved. Although muscle mass is preserved, potential changes to the metabolic and contractile capacity are unknown. To assess potential changes in NES skeletal muscle during molt, we collected muscle biopsies from 6 adult female NES at the beginning of the molt and after ~30 days at the end of the molt. Skeletal muscle was assessed for respiratory capacity using high resolution respirometry, and RNA was extracted to assess changes in gene expression. Despite a month of reduced activity, fasting, and weight loss, skeletal muscle respiratory capacity was preserved with no change in OXPHOS respiratory capacity. Molt was associated with 162 upregulated genes including genes favoring lipid metabolism and regulating cell cycles. We identified 172 downregulated genes including those coding for ribosomal proteins and genes associated with skeletal muscle force transduction and glucose metabolism. Following ~30 days of molt, NES skeletal muscle metabolic capacity appears largely preserved although mechanotransduction may be compromised. In the absence of exercise stimulus, fasting-induced shifts in skeletal muscle lipid metabolism may stimulate lipid signaling pathways associated with preserving the mass and metabolic capacity of slow oxidative muscle.

2020-09-15 | GSE151509 | GEO

Mirounga angustirostris

Project description:Mirounga angustirostris principal pseudohaplotype genome sequencing

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Project description:Mirounga angustirostris Genome sequencing and assembly

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Project description:Adipose Transcriptome of Prolonged Fasting in Northern Elephant Seal Pups