Proteomic Analysis of Urine from California Sea Lions (<i>Zalophus californianus</i>): A Resource for Urinary Biomarker Discovery

Neely, Benjamin A.; Prager, Katherine C.; Bland, Alison M.; Fontaine, Christine; Gulland, Frances M. D.; Janech, Michael G.

doi:10.1021/acs.jproteome.8b00416

Cited by 13 publications

(11 citation statements)

References 66 publications

(114 reference statements)

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“…Peptides were separated using two LC/MS platforms, an Eksigent nano-LC coupled to a SCIEX 5600 with a nanospray source and a Dionex Ultimate 3000 nano-LC coupled to an Orbitrap Fusion Lumos with a nanospray source at Hollings Marine Laboratory (Charleston, SC). Data were acquired from the Eksigent platform as described previously ( 39 ) and from the Dionex platform as described previously ( 40 ). Masses of the tryptic peptides were compared with predicted tryptic peptides in the Nostoc contig file translated in all six frames using MASCOT and MS-GF+ search engines.…”

Section: Methodsmentioning

confidence: 99%

Ice-Binding Proteins Associated with an Antarctic Cyanobacterium, Nostoc sp. HG1

Raymond

Janech

Mangiagalli

2021

Appl Environ Microbiol

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Ice-binding proteins (IBPs) have been identified in numerous polar algae and bacteria, but so far not in any cyanobacteria, despite the abundance of cyanobacteria in polar regions. We previously reported strong IBP activity associated with an Antarctic Nostoc species. Here, to identify the proteins responsible, as well as elucidate their origin, we sequenced the DNA of an environmental sample of this species, designated Nostoc sp. HG1, and its bacterial community and attempted to identify IBPs by looking for known IBPs in the metagenome and by looking for novel IBPs by MS/MS proteomics analyses of ice affinity-purified proteins. The metagenome contained over 116 DUF3494-type IBP genes, the most common type of IBP identified so far. One of the IBPs could be confidently assigned to Nostoc while the others could be attributed to diverse bacteria, which, surprisingly, accounted for the great majority of the metagenome. Recombinant Nostoc IBPs had strong ice-structuring activities and their circular dichroism spectra were consistent with the secondary structure of a DUF3494-type IBP. Nostoc IBP (nIBP) is unusual in that it is the only IBP identified so far to have a PEP C-terminal signal, a signal that has been associated with anchoring to the outer cell membrane. These results suggest that the observed IBP activity of Nostoc sp. HG1 was due to a combination of endogenous and exogenous IBPs. Amino acid and nucleotide sequence analyses of nIBP raise the possibility that it was acquired from a planctomycete. Importance The horizontal transfer of genes encoding ice-binding proteins (IBPs), proteins that confer freeze-thaw tolerance, has allowed many microorganisms to expand their ranges into polar regions. One microorganism for which nothing is known about its IBPs is cyanobacteria. Here, we identified a cyanobacterial IBP and show that it was likely acquired from another bacterium, probably a planctomycete. We also show that a consortium of IBP-producing bacteria living with the Nostoc contribute to its IBP activity.

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Section: Methodsmentioning

confidence: 99%

Ice-Binding Proteins Associated with an Antarctic Cyanobacterium, Nostoc sp. HG1

Raymond

Janech

Mangiagalli

2021

Appl Environ Microbiol

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“…The majority of the proteins identified in giraffes has also previously been reported in the urine of camels [ 20 ], cats [ 12 ], cows [ 45 ], dogs [ 46 , 47 ], and California sea lions [ 21 ], suggesting the presence of a common set of proteins in the urine of healthy mammals. However, unlike sea lions, which excrete a urine similar to humans and dogs and dominated by uromodulin, albumin, and protein AMBP [ 21 ], the urine of giraffes is characterized by a protein repertoire more similar to that reported in camels. The majority of the urinary proteins in this species were located in the extracellular region and were involved in the immune response, leading the authors to speculate that camels are able to maintain a sterile urinary tract [ 20 ].…”

Section: Discussionmentioning

confidence: 94%

“…This protein is one of the most abundant urinary proteins in giraffes and was present in all of the samples analyzed, suggesting a physiological function. The predominance of lysozyme C has also been described in the urine of California sea lions [ 21 ]. The authors hypothesized that the abundance of this immune system protein in the urine of sea lions was indicative of high innate immune protection against pathogens.…”

Section: Discussionmentioning

confidence: 99%

“…In particular, the dog and cat urinary proteome has been investigated using different techniques, as well as those of farm animals such as cow, sheep, goat, and to a lesser extent, horse and pig [ 17 , 18 ]. The literature regarding the proteomics of non-domestic animals is scarce and a few studies have been reported on big cats [ 19 ], camels [ 20 ], and California sea lions [ 21 ].…”

Section: Introductionmentioning

confidence: 99%

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Urinary Reference Values and First Insight into the Urinary Proteome of Captive Giraffes

Fasoli

Andreani

Dondi

et al. 2020

Animals

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Urinalysis is widely recognized to be a useful tool in routine health investigations, since it can diagnose numerous pathologies. Considering the paucity of knowledge concerning giraffes, urine from 44 giraffes (Giraffa camelopardalis) (18 males and 26 females, from 3 months of age to 21 years of age) underwent routine urinalysis, 1D-electrophoresis, and protein identification using mass spectrometry, with the aim of identifying the urinary reference values and the urine proteome. The urine specific gravity (USG), urine total proteins (uTP), urine creatinine (uCr), and urine protein:creatinine ratio (UPC) reference values, reported as the median, and lower limit (LL) and upper limit (UL), were 1.030 (1006–1.049), 17.58 (4.54–35.31) mg/dL, 154.62 (39.59–357.95) mg/dL, and 0.11 (0.07–0.16), respectively. Mass spectrometry, together with electrophoresis, revealed a pattern of common urinary proteins; albumin, lysozyme C, and ubiquitin were the most represented proteins in the giraffe urine. It has been hypothesized that these proteins could act as a defense against microbes. Moreover, in giraffes, urinalysis could be a valid tool for gauging renal function and physiological status changes.

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“…A total of 972 proteins were identified using label-free proteomics analyses. Regarding other marine mammals, a previous study of kidney diseases in wild animals identified a total of 2694 proteins in the urine of 19 California sea lions ( Zalophus californianus ) 21 . However, only 206 proteins were identified from the cerebrospinal fluid of 11 California sea lions 22 .…”

Section: Discussionmentioning

confidence: 99%

Proteomics reveals the preliminary physiological states of the spotted seal (Phoca largha) pups

Tian

Han

et al. 2020

Sci Rep

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Spotted seal (Phoca largha) is a critically endangered pinniped in China and South Korea. The conventional method to protect and maintain the P. largha population is to keep them captive in artificially controlled environments. However, little is known about the physiological differences between wild and captive P. largha. To generate a preliminary protein expression profile for P. largha, whole blood from wild and captive pups were subjected to a label-free comparative proteomic analysis. According to the results, 972 proteins were identified and predicted to perform functions related to various metabolic, immune, and cellular processes. Among the identified proteins, the expression level of 51 were significantly different between wild and captive P. large pups. These differentially expressed proteins were enriched in a wide range of cellular functions, including cytoskeleton, phagocytosis, proteolysis, the regulation of gene expression, and carbohydrate metabolism. The abundances of proteins involved in phagocytosis and ubiquitin-mediated proteolysis were significantly higher in the whole blood of wild P. largha pups than in captive individuals. In addition, heat shock protein 90-beta, were determined as the key protein associated with the differences in the wild and captive P. largha pups due to the most interactions of it with various differentially expressed proteins. Moreover, wild P. largha pups could be more nutritionally stressed and have more powerful immune capacities than captive pups. This study provides the first data on the protein composition of P. largha and provides useful information on the physiological characteristics for research in this species.

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Proteomic Analysis of Urine from California Sea Lions (Zalophus californianus): A Resource for Urinary Biomarker Discovery

Cited by 13 publications

References 66 publications

Ice-Binding Proteins Associated with an Antarctic Cyanobacterium, Nostoc sp. HG1

Ice-Binding Proteins Associated with an Antarctic Cyanobacterium, Nostoc sp. HG1

Urinary Reference Values and First Insight into the Urinary Proteome of Captive Giraffes

Proteomics reveals the preliminary physiological states of the spotted seal (Phoca largha) pups

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