Temperature heterogeneity correlates with intraspecific variation in physiological flexibility in a small endotherm

ABSTRACTPhenotypic flexibility allows individuals to reversibly modify trait values and theory predicts an individual’s relative degree of flexibility positively correlates with the environmental heterogeneity it experiences. We tested this prediction by integrating surveys of population genetic and physiological variation with thermal acclimation experiments and indices of environmental heterogeneity in the Dark-eyed Junco (Junco hyemalis) and its congeners. We combined measures of thermogenic capacity for ~300 individuals, >21,000 single nucleotide polymorphisms genotyped in 192 individuals, and laboratory acclimations replicated on five populations. We found that Junco populations: (1) differ in their thermal performance responses to temperature variation in situ; (2) exhibit intra-specific variation in their thermogenic flexibility in the laboratory that correlates with heterogeneity in their native thermal environment; and (3) harbor genetic variation that also correlates with temperature heterogeneity. These results provide comprehensive support that phenotypic flexibility corresponds with environmental heterogeneity and highlight its importance for coping with environmental change.

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Temperature heterogeneity correlates with intraspecific variation in physiological flexibility in a small endotherm

Nature Communications ◽

10.1038/s41467-021-24588-6 ◽

2021 ◽

Vol 12 (1) ◽

Author(s):

Maria Stager ◽

Nathan R. Senner ◽

David L. Swanson ◽

Matthew D. Carling ◽

Douglas K. Eddy ◽

...

Keyword(s):

Population Genetic ◽

Environmental Heterogeneity ◽

Thermal Environment ◽

Allelic Variation ◽

Phenotypic Flexibility ◽

Junco Hyemalis ◽

Nucleotide Polymorphisms ◽

Single Nucleotide ◽

Specific Variation ◽

Physiological Flexibility

AbstractPhenotypic flexibility allows individuals to reversibly modify trait values and theory predicts an individual’s relative degree of flexibility positively correlates with the environmental heterogeneity it experiences. We test this prediction by integrating surveys of population genetic and physiological variation with thermal acclimation experiments and indices of environmental heterogeneity in the Dark-eyed Junco (Junco hyemalis) and its congeners. We combine field measures of thermogenic capacity for 335 individuals, 22,006 single nucleotide polymorphisms genotyped in 181 individuals, and laboratory acclimations replicated on five populations. We show that Junco populations: (1) differ in their thermogenic responses to temperature variation in the field; (2) harbor allelic variation that also correlates with temperature heterogeneity; and (3) exhibit intra-specific variation in thermogenic flexibility in the laboratory that correlates with the heterogeneity of their native thermal environment. These results provide comprehensive support that phenotypic flexibility corresponds with environmental heterogeneity and highlight its importance for coping with environmental change.

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Genome-Wide Single Nucleotide Polymorphisms are Robust in Resolving Fine-Scale Population Genetic Structure of the Small Brown Planthopper, Laodelphax striatellus (Fallén) (Hemiptera: Delphacidae)

Journal of Economic Entomology ◽

10.1093/jee/toz145 ◽

2019 ◽

Vol 112 (5) ◽

pp. 2362-2368

Author(s):

Yan Liu ◽

Lei Chen ◽

Xing-Zhi Duan ◽

Dian-Shu Zhao ◽

Jing-Tao Sun ◽

...

Keyword(s):

Population Structure ◽

Discriminant Analysis ◽

Genetic Structure ◽

Population Genetic ◽

Brown Planthopper ◽

Fine Scale ◽

Nucleotide Polymorphisms ◽

Single Nucleotide ◽

Small Brown Planthopper ◽

Scale Population

Abstract Deciphering genetic structure and inferring migration routes of insects with high migratory ability have been challenging, due to weak genetic differentiation and limited resolution offered by traditional genotyping methods. Here, we tested the ability of double digest restriction-site associated DNA sequencing (ddRADseq)-based single nucleotide polymorphisms (SNPs) in revealing the population structure relative to 13 microsatellite markers by using four small brown planthopper populations as subjects. Using ddRADseq, we identified 230,000 RAD loci and 5,535 SNP sites, which were present in at least 80% of individuals across the four populations with a minimum sequencing depth of 10. Our results show that this large SNP panel is more powerful than traditional microsatellite markers in revealing fine-scale population structure among the small brown planthopper populations. In contrast to the mixed population structure suggested by microsatellites, discriminant analysis of principal components (DAPC) of the SNP dataset clearly separated the individuals into four geographic populations. Our results also suggest the DAPC analysis is more powerful than the principal component analysis (PCA) in resolving population genetic structure of high migratory taxa, probably due to the advantages of DAPC in using more genetic variation and the discriminant analysis function. Together, these results point to ddRADseq being a promising approach for population genetic and migration studies of small brown planthopper.

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Single-Nucleotide Polymorphisms in LPA Explain Most of the Ancestry-Specific Variation in Lp(a) Levels in African Americans

PLoS ONE ◽

10.1371/journal.pone.0014581 ◽

2011 ◽

Vol 6 (1) ◽

pp. e14581 ◽

Cited By ~ 42

Author(s):

Rahul C. Deo ◽

James G. Wilson ◽

Chao Xing ◽

Kim Lawson ◽

W. H. Linda Kao ◽

...

Keyword(s):

African Americans ◽

Single Nucleotide Polymorphisms ◽

Nucleotide Polymorphisms ◽

Single Nucleotide ◽

Specific Variation

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Population genetic variation of the Southern Ocean krill, Euphausia superba, in the Western Antarctic Peninsula region based on mitochondrial single nucleotide polymorphisms (SNPs)

Deep Sea Research Part II Topical Studies in Oceanography ◽

10.1016/j.dsr2.2010.11.017 ◽

2011 ◽

Vol 58 (13-16) ◽

pp. 1652-1661 ◽

Cited By ~ 16

Author(s):

Paola G. Batta-Lona ◽

Ann Bucklin ◽

Peter H. Wiebe ◽

Tomaso Patarnello ◽

Nancy J. Copley

Keyword(s):

Genetic Variation ◽

Single Nucleotide Polymorphisms ◽

Southern Ocean ◽

Antarctic Peninsula ◽

Population Genetic ◽

Euphausia Superba ◽

Western Antarctic Peninsula ◽

Nucleotide Polymorphisms ◽

Single Nucleotide ◽

Population Genetic Variation

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Effect of Polymorphisms of ABCB1 and MTHFR on Methotrexate-Related Toxicities in Adults With Hematological Malignancies

Frontiers in Oncology ◽

10.3389/fonc.2021.759805 ◽

2021 ◽

Vol 11 ◽

Author(s):

Jian Han ◽

Lu Liu ◽

Li Meng ◽

Huan Guo ◽

Jin Zhang ◽

...

Keyword(s):

Hematological Malignancies ◽

Optimal Dose ◽

Disease Type ◽

Chinese Patients ◽

High Dose ◽

Nucleotide Polymorphisms ◽

Single Nucleotide ◽

Leucovorin Rescue ◽

Hematopoietic Toxicity

Study of the association between single nucleotide polymorphisms (SNPs) of methotrexate (MTX) pathway genes and MTX-related toxicity in the treatment of hematological malignancies is popular. Here, we studied the association between SNPs of MTHFR and ABCB1 and MTX-related toxicity in 157 adult Chinese patients diagnosed with hematological malignancies. Patients were genotyped for MTHFR rs1801131, MTHFR rs1801133, and ABCB1 rs1045642 by fluorescence in situ hybridization. Patients with MTHFR rs1801133T allele had a significantly higher risk of hematopoietic toxicity compared with those with CC genotype (p=0.003). With respect to MTHFR rs1801131, patients with CC and AC genotypes had significantly lower frequency of hematopoietic toxicity than patients with AA genotype (p=0.044). In conclusion, we identified an important influence of the SNPs of ABCB1 and MTHFR on MTX-related hematopoietic toxicity in adults with hematological malignancies. To optimize high-dose (HD)-MTX therapy and reduce related hematopoietic toxicity, it is necessary to detect the SNPs of MTHFR and ABCB1 before initiating HD-MTX and deciding the optimal dose of MTX and duration of leucovorin rescue, according to genetic tests and disease type in adults with hematological malignancies.

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Single nucleotide polymorphisms, putatively neutral DNA markers and population genetic parameters in Indian Plasmodium vivax isolates

Parasitology ◽

10.1017/s0031182010000533 ◽

2010 ◽

Vol 137 (12) ◽

pp. 1721-1730 ◽

Cited By ~ 5

Author(s):

BHAVNA GUPTA ◽

ADITYA P. DASH ◽

NALINI SHRIVASTAVA ◽

APARUP DAS

Keyword(s):

Population Genetics ◽

Single Nucleotide Polymorphisms ◽

Plasmodium Vivax ◽

Population Genetic ◽

Syntenic Region ◽

Sequence Information ◽

Nucleotide Polymorphisms ◽

Single Nucleotide ◽

Intergenic Regions ◽

Neutral Markers

SUMMARYWith a view to developing putatively neutral markers based on Single Nucleotide Polymorphisms (SNPs) in the human malaria parasite, Plasmodium vivax, we utilized the published whole genome sequence information of P. falciparum and P. vivax to find a ~200 kb conserved syntenic region between these two species. We have selected 27 non-coding DNA fragments (in introns and intergenic regions) of variable length (300–750 bp) in P. vivax in this syntenic region. PCR of P. vivax isolates of a population sample from India could successfully amplify 17 fragments. Subsequently, DNA sequencing and sequence analysis confirmed the polymorphic status of only 11 fragments. Altogether, 18 SNPs were detected and 2 different measures of nucleotide diversity showed variable patterns across different fragments; in general, introns were less variable than the intergenic regions. All 11 polymorphic fragments were found to be evolving according to a neutral equilibrium model and thus could be utilized as putatively neutral markers for population genetic studies in P. vivax. Different molecular population genetics parameters were also estimated, providing initial insight into the population genetics of Indian P. vivax.

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