cindywu · August 7, 2020 23:56
diff --git a/gistfile1.txt b/gistfile1.txt
 Spiders were once thought to have limited color production palettes, and even to lack melanin – one of the most ubiquitous biological pigments. Recent discoveries upend that view and show that the color production mechanisms in spiders are as elaborate as some of the more classically colorful groups of animals, such as birds, butterflies, and beetles. Here we summarize how colors are produced by spiders, identify gaps in our knowledge, show how researchers investigating color in different groups of animals can learn from each other, and suggest future opportunities for spider color research. Our understanding of color production mechanisms in other colorful groups of animals can be used as guidelines for discovering existing mechanisms previously unknown in spiders and vice versa. For example, spider species with colors potentially produced by the same kind of photonic structures previously described in white beetles, and in the blue/green scales of fishes and lizards are suggested here. In addition, novel principles first found in spiders that modify the iridescence of structural colors via the interaction of structural features across different length scales (i.e., micro-nano) may also be found in other colorful groups in the future. This review summarizes the state-of-the-art understanding regarding the proximate color production mechanisms in spiders, suggests a few future research directions that are likely to be fruitful, and facilitates the advancements in related fields, including the ecology, evolution, and functions of spider coloration.

 Eastern hemlock (Tsuga canadensis) is declining throughout the eastern United States due to hemlock woolly adelgid (Adelges tsugae Annand), an invasive insect from Asia. In the southern Appalachians, hemlock is concentrated in moist ravines and its decline threatens riparian ecosystems. Previous research on this invasion has focused on adelgid control and how hemlock decline affects community composition or forest processes; few studies have evaluated the consequences for demography of obligate riparian species. The Louisiana Waterthrush (Parkesia motacilla) is an obligate riparian species that could be sensitive to hemlock condition in this region, but how individuals respond to decline is currently unknown. To address this knowledge gap, we leveraged recent adelgid treatment efforts in Great Smoky Mountains National Park to evaluate the relationship(s) between hemlock decline and waterthrush habitat selection (foraging and nest site) and vital rates (nest and adult survival). We found that hemlock decline was unrelated to foraging habitat selection and apparent adult survival, but was related to nest site selection through an interaction with percent ground cover of exposed live tree roots: birds selected for nest sites in areas with more exposed live roots but only when hemlock was in poor condition. Nest survival was lower in areas where deciduous species (vs. evergreen species) dominated the understory, suggesting that adelgid invasion could indirectly impact waterthrush fitness depending on how vegetative succession proceeds following hemlock decline. Our results suggest that the short-term consequences of adelgid invasion on this riparian avian species are minimal in this area, but these relationships are likely dynamic and dependent on local habitat features and the predator community response to hemlock decline.

 Honey bees are important pollinators of agricultural crops and the dramatic losses of honey bee colonies have risen to a level of international concern. Potential contributors to such losses include pesticide exposure, lack of floral resources and parasites and pathogens. The damaging effects of all of these may be exacerbated by apicultural practices. To meet the pollination demand of US crops, bees are transported to areas of high pollination demand throughout the year. Compared to stationary colonies, risk of parasitism and infectious disease may be greater for migratory bees than those that remain in a single location, although this has not been experimentally established. Here, we conducted a manipulative experiment to test whether viral pathogen and parasite loads increase as a result of colonies being transported for pollination of a major US crop, California almonds. We also tested if they subsequently transmit those diseases to stationary colonies upon return to their home apiaries. Colonies started with equivalent numbers of bees, however migratory colonies returned with fewer bees compared to stationary colonies and this difference remained one month later. Migratory colonies returned with higher black queen cell virus loads than stationary colonies, but loads were similar between groups one month later. Colonies exposed to migratory bees experienced a greater increase of deformed wing virus prevalence and load compared to the isolated group. The three groups had similar infestations of Varroa mites upon return of the migratory colonies. However, one month later, mite loads in migratory colonies were significantly lower compared to the other groups, possibly because of lower number of host bees. Our study demonstrates that migratory pollination practices has varying health effects for honey bee colonies. Further research is necessary to clarify how migratory pollination practices influence the disease dynamics of honey bee diseases we describe here.

 An essential dimension of food tasting (i.e., flavor) is olfactory stimulation by volatile organic compounds (VOCs) emitted therefrom. Here, we developed a novel analytical method based on solid-phase microextraction (SPME) sampling in argon-filled gas sampling bags with direct gas chromatography–mass spectrometry (GC-MS) determination to profile the volatile constituents of 31 homemade preserves prepared in South Dakota (USA) during the period 1950–1953. Volatile profiles varied considerably, but generally decreased in detected compounds, complexity, and intensity over three successive 2-h SPME sampling periods. Volatile profiles were generally predominated by aldehydes, alcohols, esters, ketones, and organic acids, with terpenoids constituting much of the pickled cucumber volatiles. Bisphenol-A (BPA) was also serendipitously detected and then quantified in 29 samples, at levels ranging from 3.4 to 19.2 μg/kg, within the range of levels known to induce endocrine disruption effects. Absence of BPA in two samples was attributed to their lids lacking plastic liners. As the timing of their preparation coincides with the beginning of BPA incorporation into consumer products, these jars may be some of the first BPA-containing products in the USA. To the best of our knowledge, this is the first effort to characterize BPA in and volatile profiles of rare historical foods with SPME. 

 Southern corroboree frogs (Pseudophryne corroboree) have been driven to functional extinction in the wild after the emergence of the amphibian fungal pathogen Batrachochytrium dendrobatidis (Bd) in southeastern Australia in the 1980s. This species is currently maintained in a captive assurance colony and is managed to preserve the genetic diversity of the founding populations. However, it is unlikely that self-sustaining wild populations can be re-established unless Bd resistance increases. We performed a Bd-challenge study to investigate the association between genetic variants of the major histocompatibility complex class IA (MHC) and genome-wide single nucleotide polymorphisms (SNPs). We also investigated differences in Bd susceptibility among individuals and populations, and the genetic diversity and population genetic structure of four natural P. corroboree populations. We found several MHC alleles and SNPs associated with Bd infection load and survival, provide evidence of significant structure among populations, and identified population-level differences in the frequency of influential variants. We also detected evidence of positive selection acting on the MHC and a subset of SNPs as well as evidence of high genetic diversity in P. corroboree populations. We suggest that low interbreeding rates may have contributed to the demise of this species by limiting the spread of Bd resistance genes. However, our findings demonstrate that despite dramatic declines there is potential to restore high levels of genetic diversity in P. corroboree. Additionally, we show that there are immunogenetic differences among captive southern corroboree frogs, which could be manipulated to increase disease resistance and mitigate the key threatening process, chytridiomycosis.

 Brown coat color, the B Locus, in sheep is known to be recessive to black; however, the potential molecular cause(s) across various breeds have not yet been discovered. Based on evidence from other species, TYRP1 is hypothesized to carry mutations responsible for changes from black to brown pigment in sheep breeds raised for wool. In the present study, we investigated the TYRP1 gene by Sanger sequencing the coding regions across several sheep populations within the United States that contain black and brown individuals. We identified two SNPs associated with brown coat color (chr2:80,608,128G>T and chr2:80,611,700C>T) located within exon 3 and 4, respectively. The exon 3 SNP leads to an amino acid change from cysteine to phenylalanine (C290F) and the exon 4 SNP introduces a premature stop codon in the TYRP1 protein (R356X). These SNPs segregate by breed where R356X is found in Icelandics and Shetlands, C290F is found in Natural Colored Finewool and Finnsheep, and Romeldales and Romneys carry both mutations. The results from this study provide more insight into coat color genetics in sheep and will allow breeders to make more accurate breeding decisions to meet their wool markets.

 Unresolved taxonomy of threatened species is problematic for conservation as the field relies on species being distinct taxonomic units. Differences in breeding habitat and results from a preliminary molecular analysis indicated that the New Zealand population of the South Georgian Diving Petrel (Pelecanoides georgicus) was a distinct, yet undescribed, species. We measured 11 biometric characters and scored eight plumage characters in 143 live birds and 64 study skins originating from most populations of P. georgicus, to assess their taxonomic relationships. We analysed differences with principal component analyses (PCA), factorial ANOVAs, and Kruskal-Wallis rank sum tests. Results show that individuals from New Zealand differ significantly from P. georgicus from all other populations as following: 1) longer wings, 2) longer outer tail feathers, 3) deeper bills, 4) longer heads, 5) longer tarsi, 6) limited collar extent, 7) greater extent of contrasting scapulars, 8) larger contrasting markings on the secondaries, 9) paler ear coverts, 10) paler collars, and 11) paler flanks. Furthermore, we used a species delimitation test with quantitative phenotypic criteria; results reveal that the New Zealand population of P. georgicus indeed merits species status. We hereby name this new species Pelecanoides whenuahouensis sp. nov. Due to severe reductions in its range and the very low number of remaining birds (~150 individuals limited to a single breeding colony on Codfish Island/Whenua Hou) the species warrants listing as ‘Critically Endangered’.

 Spotted Linsang Prionodon pardicolor has been rarely recorded in Nepal except for Hodgson’s collection in the 19th century and several sighting records in Chitwan National Park during the late 1970s and 1980s. A camera-trap record in Annapurna Conservation Area during a Mainland Clouded Leopard Neofelis nebulosa survey in January 2017, constitutes the first verifiable evidence of the species in the country since the nineteenth century. This authenticates the westernmost known limit of its current global distribution.

 The Luangwa Valley in eastern Zambia is a transverse offshoot of the Great Rift Valley system. This region appears to have an isolating effect as evidenced by suspected endemic subspecies, such as the Cookson’s wildebeest and Thornicroft’s giraffe. Recent mitochondrial DNA studies demonstrated that African lions in Zambia consist of two highly diverse eastern and western sub-populations. Herein, we report nuclear and mitochondrial DNA results from 409 lions that support this population substructure across Zambia but proposes only partial isolation of the Luangwa Valley with more movement between the populations than previously thought. Population assignment analysis identifies two populations with little evidence of admixture assigning lions to either the eastern or western sub-populations. A high occurrence of private alleles and clear evidence for a Wahlund effect further justify the presence of a highly structured population. But, while mitochondrial DNA analysis still shows little to no matrilineal gene flow (FST = 0.53) between sub-populations, microsatellite analysis suggests there is gene flow (FST = 0.04) with low but significant isolation-by-distance and an average of 6 migrants per generation. Evidence of isolation-by-distance is also found in factorial correspondence analysis with the Lower Zambezi National Park and eastern corridor clusters overlapping isolated clusters of the Luangwa Valley and western sub-population. From this evidence, the Luangwa Valley appears separated from the western sub-population with some dispersal through the southern regions of the eastern sub-population. Both the eastern and western sub-populations have high heterozygosity (0.68 and 0.69, respectively) and genetic diversity (0.47 and 0.50, respectively) values, indicative of genetically healthy populations.

 We study gender representation on the editorial boards of 435 journals in the mathematical sciences. Women are known to comprise approximately 15% of tenure-stream faculty positions in doctoral-granting mathematical sciences departments in the United States. Compared to this group, we find that 8.9% of the 13067 editorships in our study are held by women. We describe group variations within the editorships by identifying specific journals, subfields, publishers, and countries that significantly exceed or fall short of this average. To enable our study, we develop a semi-automated method for inferring gender that has an estimated accuracy of 97.5%. Our findings provide the first measure of gender distribution on editorial boards in the mathematical sciences, offer insights that suggest future studies in the mathematical sciences, and introduce new methods that enable large-scale studies of gender distribution in other fields.
	Spiders were once thought to have limited color production palettes, and even to lack melanin – one of the most ubiquitous biological pigments. Recent discoveries upend that view and show that the color production mechanisms in spiders are as elaborate as some of the more classically colorful groups of animals, such as birds, butterflies, and beetles. Here we summarize how colors are produced by spiders, identify gaps in our knowledge, show how researchers investigating color in different groups of animals can learn from each other, and suggest future opportunities for spider color research. Our understanding of color production mechanisms in other colorful groups of animals can be used as guidelines for discovering existing mechanisms previously unknown in spiders and vice versa. For example, spider species with colors potentially produced by the same kind of photonic structures previously described in white beetles, and in the blue/green scales of fishes and lizards are suggested here. In addition, novel principles first found in spiders that modify the iridescence of structural colors via the interaction of structural features across different length scales (i.e., micro-nano) may also be found in other colorful groups in the future. This review summarizes the state-of-the-art understanding regarding the proximate color production mechanisms in spiders, suggests a few future research directions that are likely to be fruitful, and facilitates the advancements in related fields, including the ecology, evolution, and functions of spider coloration.

	Eastern hemlock (Tsuga canadensis) is declining throughout the eastern United States due to hemlock woolly adelgid (Adelges tsugae Annand), an invasive insect from Asia. In the southern Appalachians, hemlock is concentrated in moist ravines and its decline threatens riparian ecosystems. Previous research on this invasion has focused on adelgid control and how hemlock decline affects community composition or forest processes; few studies have evaluated the consequences for demography of obligate riparian species. The Louisiana Waterthrush (Parkesia motacilla) is an obligate riparian species that could be sensitive to hemlock condition in this region, but how individuals respond to decline is currently unknown. To address this knowledge gap, we leveraged recent adelgid treatment efforts in Great Smoky Mountains National Park to evaluate the relationship(s) between hemlock decline and waterthrush habitat selection (foraging and nest site) and vital rates (nest and adult survival). We found that hemlock decline was unrelated to foraging habitat selection and apparent adult survival, but was related to nest site selection through an interaction with percent ground cover of exposed live tree roots: birds selected for nest sites in areas with more exposed live roots but only when hemlock was in poor condition. Nest survival was lower in areas where deciduous species (vs. evergreen species) dominated the understory, suggesting that adelgid invasion could indirectly impact waterthrush fitness depending on how vegetative succession proceeds following hemlock decline. Our results suggest that the short-term consequences of adelgid invasion on this riparian avian species are minimal in this area, but these relationships are likely dynamic and dependent on local habitat features and the predator community response to hemlock decline.

	Honey bees are important pollinators of agricultural crops and the dramatic losses of honey bee colonies have risen to a level of international concern. Potential contributors to such losses include pesticide exposure, lack of floral resources and parasites and pathogens. The damaging effects of all of these may be exacerbated by apicultural practices. To meet the pollination demand of US crops, bees are transported to areas of high pollination demand throughout the year. Compared to stationary colonies, risk of parasitism and infectious disease may be greater for migratory bees than those that remain in a single location, although this has not been experimentally established. Here, we conducted a manipulative experiment to test whether viral pathogen and parasite loads increase as a result of colonies being transported for pollination of a major US crop, California almonds. We also tested if they subsequently transmit those diseases to stationary colonies upon return to their home apiaries. Colonies started with equivalent numbers of bees, however migratory colonies returned with fewer bees compared to stationary colonies and this difference remained one month later. Migratory colonies returned with higher black queen cell virus loads than stationary colonies, but loads were similar between groups one month later. Colonies exposed to migratory bees experienced a greater increase of deformed wing virus prevalence and load compared to the isolated group. The three groups had similar infestations of Varroa mites upon return of the migratory colonies. However, one month later, mite loads in migratory colonies were significantly lower compared to the other groups, possibly because of lower number of host bees. Our study demonstrates that migratory pollination practices has varying health effects for honey bee colonies. Further research is necessary to clarify how migratory pollination practices influence the disease dynamics of honey bee diseases we describe here.

	An essential dimension of food tasting (i.e., flavor) is olfactory stimulation by volatile organic compounds (VOCs) emitted therefrom. Here, we developed a novel analytical method based on solid-phase microextraction (SPME) sampling in argon-filled gas sampling bags with direct gas chromatography–mass spectrometry (GC-MS) determination to profile the volatile constituents of 31 homemade preserves prepared in South Dakota (USA) during the period 1950–1953. Volatile profiles varied considerably, but generally decreased in detected compounds, complexity, and intensity over three successive 2-h SPME sampling periods. Volatile profiles were generally predominated by aldehydes, alcohols, esters, ketones, and organic acids, with terpenoids constituting much of the pickled cucumber volatiles. Bisphenol-A (BPA) was also serendipitously detected and then quantified in 29 samples, at levels ranging from 3.4 to 19.2 μg/kg, within the range of levels known to induce endocrine disruption effects. Absence of BPA in two samples was attributed to their lids lacking plastic liners. As the timing of their preparation coincides with the beginning of BPA incorporation into consumer products, these jars may be some of the first BPA-containing products in the USA. To the best of our knowledge, this is the first effort to characterize BPA in and volatile profiles of rare historical foods with SPME.

	Southern corroboree frogs (Pseudophryne corroboree) have been driven to functional extinction in the wild after the emergence of the amphibian fungal pathogen Batrachochytrium dendrobatidis (Bd) in southeastern Australia in the 1980s. This species is currently maintained in a captive assurance colony and is managed to preserve the genetic diversity of the founding populations. However, it is unlikely that self-sustaining wild populations can be re-established unless Bd resistance increases. We performed a Bd-challenge study to investigate the association between genetic variants of the major histocompatibility complex class IA (MHC) and genome-wide single nucleotide polymorphisms (SNPs). We also investigated differences in Bd susceptibility among individuals and populations, and the genetic diversity and population genetic structure of four natural P. corroboree populations. We found several MHC alleles and SNPs associated with Bd infection load and survival, provide evidence of significant structure among populations, and identified population-level differences in the frequency of influential variants. We also detected evidence of positive selection acting on the MHC and a subset of SNPs as well as evidence of high genetic diversity in P. corroboree populations. We suggest that low interbreeding rates may have contributed to the demise of this species by limiting the spread of Bd resistance genes. However, our findings demonstrate that despite dramatic declines there is potential to restore high levels of genetic diversity in P. corroboree. Additionally, we show that there are immunogenetic differences among captive southern corroboree frogs, which could be manipulated to increase disease resistance and mitigate the key threatening process, chytridiomycosis.

	Brown coat color, the B Locus, in sheep is known to be recessive to black; however, the potential molecular cause(s) across various breeds have not yet been discovered. Based on evidence from other species, TYRP1 is hypothesized to carry mutations responsible for changes from black to brown pigment in sheep breeds raised for wool. In the present study, we investigated the TYRP1 gene by Sanger sequencing the coding regions across several sheep populations within the United States that contain black and brown individuals. We identified two SNPs associated with brown coat color (chr2:80,608,128G>T and chr2:80,611,700C>T) located within exon 3 and 4, respectively. The exon 3 SNP leads to an amino acid change from cysteine to phenylalanine (C290F) and the exon 4 SNP introduces a premature stop codon in the TYRP1 protein (R356X). These SNPs segregate by breed where R356X is found in Icelandics and Shetlands, C290F is found in Natural Colored Finewool and Finnsheep, and Romeldales and Romneys carry both mutations. The results from this study provide more insight into coat color genetics in sheep and will allow breeders to make more accurate breeding decisions to meet their wool markets.

	Unresolved taxonomy of threatened species is problematic for conservation as the field relies on species being distinct taxonomic units. Differences in breeding habitat and results from a preliminary molecular analysis indicated that the New Zealand population of the South Georgian Diving Petrel (Pelecanoides georgicus) was a distinct, yet undescribed, species. We measured 11 biometric characters and scored eight plumage characters in 143 live birds and 64 study skins originating from most populations of P. georgicus, to assess their taxonomic relationships. We analysed differences with principal component analyses (PCA), factorial ANOVAs, and Kruskal-Wallis rank sum tests. Results show that individuals from New Zealand differ significantly from P. georgicus from all other populations as following: 1) longer wings, 2) longer outer tail feathers, 3) deeper bills, 4) longer heads, 5) longer tarsi, 6) limited collar extent, 7) greater extent of contrasting scapulars, 8) larger contrasting markings on the secondaries, 9) paler ear coverts, 10) paler collars, and 11) paler flanks. Furthermore, we used a species delimitation test with quantitative phenotypic criteria; results reveal that the New Zealand population of P. georgicus indeed merits species status. We hereby name this new species Pelecanoides whenuahouensis sp. nov. Due to severe reductions in its range and the very low number of remaining birds (~150 individuals limited to a single breeding colony on Codfish Island/Whenua Hou) the species warrants listing as ‘Critically Endangered’.

	Spotted Linsang Prionodon pardicolor has been rarely recorded in Nepal except for Hodgson’s collection in the 19th century and several sighting records in Chitwan National Park during the late 1970s and 1980s. A camera-trap record in Annapurna Conservation Area during a Mainland Clouded Leopard Neofelis nebulosa survey in January 2017, constitutes the first verifiable evidence of the species in the country since the nineteenth century. This authenticates the westernmost known limit of its current global distribution.

	The Luangwa Valley in eastern Zambia is a transverse offshoot of the Great Rift Valley system. This region appears to have an isolating effect as evidenced by suspected endemic subspecies, such as the Cookson’s wildebeest and Thornicroft’s giraffe. Recent mitochondrial DNA studies demonstrated that African lions in Zambia consist of two highly diverse eastern and western sub-populations. Herein, we report nuclear and mitochondrial DNA results from 409 lions that support this population substructure across Zambia but proposes only partial isolation of the Luangwa Valley with more movement between the populations than previously thought. Population assignment analysis identifies two populations with little evidence of admixture assigning lions to either the eastern or western sub-populations. A high occurrence of private alleles and clear evidence for a Wahlund effect further justify the presence of a highly structured population. But, while mitochondrial DNA analysis still shows little to no matrilineal gene flow (FST = 0.53) between sub-populations, microsatellite analysis suggests there is gene flow (FST = 0.04) with low but significant isolation-by-distance and an average of 6 migrants per generation. Evidence of isolation-by-distance is also found in factorial correspondence analysis with the Lower Zambezi National Park and eastern corridor clusters overlapping isolated clusters of the Luangwa Valley and western sub-population. From this evidence, the Luangwa Valley appears separated from the western sub-population with some dispersal through the southern regions of the eastern sub-population. Both the eastern and western sub-populations have high heterozygosity (0.68 and 0.69, respectively) and genetic diversity (0.47 and 0.50, respectively) values, indicative of genetically healthy populations.

	We study gender representation on the editorial boards of 435 journals in the mathematical sciences. Women are known to comprise approximately 15% of tenure-stream faculty positions in doctoral-granting mathematical sciences departments in the United States. Compared to this group, we find that 8.9% of the 13067 editorships in our study are held by women. We describe group variations within the editorships by identifying specific journals, subfields, publishers, and countries that significantly exceed or fall short of this average. To enable our study, we develop a semi-automated method for inferring gender that has an estimated accuracy of 97.5%. Our findings provide the first measure of gender distribution on editorial boards in the mathematical sciences, offer insights that suggest future studies in the mathematical sciences, and introduce new methods that enable large-scale studies of gender distribution in other fields.