A method to distinguish morphologically similar Peromyscus species using extracellular RNA and high-resolution melt analysis

Seifert, Veronica A.; Clarke, Benjamin L.; Crossland, Janet P.; Bemis, Lynne T.

doi:10.1016/j.ab.2016.06.022

Cited by 3 publications

(2 citation statements)

References 44 publications

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“…The unexpected stability of exRNA and new technologies to deep sequence RNA have led to an explosion of new biomarker studies focusing on ncRNAs in accessible samples (1–4). RNA is a preferred molecule for biomarker discovery in liquid biopsies due to its representation of the physiological state of the organism (44,45). RNA as a potential biomarker in urine was recognized as early as the 1970s when tRNAs were detected at increased levels in urine from cancer patients (46).…”

Section: Discussionmentioning

confidence: 99%

A method for extracting and characterizing RNA from urine: For downstream PCR and RNAseq analysis

Zhou

Spillman

Behbakht

et al. 2017

Analytical Biochemistry

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Readily accessible samples such as urine or blood are seemingly ideal for differentiating and stratifying patients; however, it has proven a daunting task to identify reliable biomarkers in such samples. Noncoding RNA holds great promise as a source of biomarkers distinguishing physiologic wellbeing or illness. Current methods to isolate and characterize RNA molecules in urine are limited. In this proof of concept study, we present a method to extract and identify small noncoding RNAs in urine. Initially, quantitative reverse transcription PCR was applied to confirm the presence of microRNAs in total RNA extracted from urine. Once the presence of micro RNA in urine was confirmed, we developed a method to scale up RNA extraction to provide adequate amounts of RNA for next generation sequence analysis. The method described in this study is applicable to detecting a broad range of small noncoding RNAs in urine; thus, they have wide applicability for health and disease analyses.

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Section: Discussionmentioning

confidence: 99%

A method for extracting and characterizing RNA from urine: For downstream PCR and RNAseq analysis

Zhou

Spillman

Behbakht

et al. 2017

Analytical Biochemistry

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“…Although several studies have shown that P. leucopus and P. maniculatus may exhibit significant differences in external traits, measurement ranges often overlap and classification analyses based on external morphology analyses tend to perform moderately or poorly (Rich et al 1996;Kamler et al 1998;Lindquist et al 2003). Indeed, it often appears that reliable and accurate identification of either species requires detailed cranial measurements (Rich et al 1996), or molecular methods such as salivary amylase phenotyping (Aquadro and Patton 1980), and amplification of genetic markers (Tessier et al 2004;Ridenhour and Cramer 2015;Seifert et al 2016). The similarities in morphology, ecology, and life history traits suggest that potential hybridization between both species is possible.…”

Section: Introductionmentioning

confidence: 99%

Microsatellite markers reveal low frequency of natural hybridization between the white-footed mouse (Peromyscus leucopus) and deer mouse (Peromyscus maniculatus) in southern Quebec, Canada

Leo

Millien

2017

Genome

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In some parts of southern Quebec, two closely related rodent species - the white-footed mouse (Peromyscus leucopus) and the deer mouse (Peromyscus maniculatus) - have recently come in contact because of climate-driven changes in the distribution of the former. Both species share similar morphology, ecology, and life history traits, which suggests that natural hybridization may be possible. Hybridization among these two species can have important implications on the ecological roles these rodents play in disease transmission, yet few researchers have attempted to examine this phenomenon and results from previous hybridization experiments have remained inconclusive and conflicting. In this study, we attempt to investigate the occurrence of hybridization among white-footed mice and deer mice in southern Quebec by genotyping wild caught specimens with selectively neutral, polymorphic microsatellite markers. Our analyses suggest that hybridization may be occurring at extremely low frequency between both species in our study area. The presence of such hybridization events, even at low frequencies, may have implications on disease transmission risk in the region and further detailed studies are necessary.

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Rapid morphological divergence in two closely related and co-occurring species over the last 50 years

et al. 2017

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A method to distinguish morphologically similar Peromyscus species using extracellular RNA and high-resolution melt analysis

Cited by 3 publications

References 44 publications

A method for extracting and characterizing RNA from urine: For downstream PCR and RNAseq analysis

A method for extracting and characterizing RNA from urine: For downstream PCR and RNAseq analysis

Microsatellite markers reveal low frequency of natural hybridization between the white-footed mouse (Peromyscus leucopus) and deer mouse (Peromyscus maniculatus) in southern Quebec, Canada

Rapid morphological divergence in two closely related and co-occurring species over the last 50 years

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