The Southern Ocean represents a continuous stretch of circumpolar marine habitat, but the potential physical and ecological drivers of evolutionary genetic differentiation across this vast ecosystem ...remain unclear. We tested for genetic structure across the full circumpolar range of the white‐chinned petrel (Procellaria aequinoctialis) to unravel the potential drivers of population differentiation and test alternative population differentiation hypotheses. Following range‐wide comprehensive sampling, we applied genomic (genotyping‐by‐sequencing or GBS; 60,709 loci) and standard mitochondrial‐marker approaches (cytochrome b and first domain of control region) to quantify genetic diversity within and among island populations, test for isolation by distance, and quantify the number of genetic clusters using neutral and outlier (non‐neutral) loci. Our results supported the multi‐region hypothesis, with a range of analyses showing clear three‐region genetic population structure, split by ocean basin, within two evolutionary units. The most significant differentiation between these regions confirmed previous work distinguishing New Zealand and nominate subspecies. Although there was little evidence of structure within the island groups of the Indian or Atlantic oceans, a small set of highly‐discriminatory outlier loci could assign petrels to ocean basin and potentially to island group, though the latter needs further verification. Genomic data hold the key to revealing substantial regional genetic structure within wide‐ranging circumpolar species previously assumed to be panmictic.
Inflammatory diseases such as arthritis are chronic conditions that fail to resolve spontaneously. While the cytokine and cellular pathways triggering arthritis are well defined, those responsible ...for the resolution of inflammation are incompletely characterized. Here we identified interleukin (IL)-9-producing type 2 innate lymphoid cells (ILC2s) as the mediators of a molecular and cellular pathway that orchestrates the resolution of chronic inflammation. In mice, the absence of IL-9 impaired ILC2 proliferation and activation of regulatory T (T
) cells, and resulted in chronic arthritis with excessive cartilage destruction and bone loss. In contrast, treatment with IL-9 promoted ILC2-dependent T
activation and effectively induced resolution of inflammation and protection of bone. Patients with rheumatoid arthritis in remission exhibited high numbers of IL-9
ILC2s in joints and the circulation. Hence, fostering IL-9-mediated ILC2 activation may offer a novel therapeutic approach inducing resolution of inflammation rather than suppression of inflammatory responses.
Study of parallel (or convergent) phenotypic evolution can provide important insights into processes driving sympatric, ecologically-mediated divergence and speciation, as ecotype pairs may provide a ...biological replicate of the underlying signals and mechanisms. Here, we provide evidence for a selective sweep creating an island of divergence associated with reproductive behavior in sockeye salmon (Oncorhynchus nerka), identifying a series of linked single nucleotide polymorphisms across a ~22,733 basepair region spanning the leucine-rich repeat-containing protein 9 gene exhibiting signatures of divergent selection associated with stream- and shore-spawning in both anadromous and resident forms across their pan-Pacific distribution. This divergence likely occurred ~3.8 Mya (95% HPD = 2.1-6.03 Mya), after sockeye separated from pink (O. gorbuscha) and chum (O. keta) salmon, but prior to the Pleistocene glaciations. Our results suggest recurrent evolution of reproductive ecotypes across the native range of O. nerka is at least partially associated with divergent selection of pre-existing genetic variation within or linked to this region. As sockeye salmon are unique among Pacific salmonids in their flexibility to spawn in lake-shore benthic environments, this region provides great promise for continued investigation of the genomic basis of O. nerka life history evolution, and, more broadly, for increasing our understanding of the heritable basis of adaptation of complex traits in novel environments.
Lytic polysaccharide monooxygenases (LPMOs), copper-dependent enzymes mainly found in fungi, bacteria, and viruses, are responsible for enabling plant infection and degradation processes. Since their ...discovery 10 years ago, significant progress has been made in understanding the major role these enzymes play in biomass conversion. The recent discovery of additional LPMO families in fungi and oomycetes (AA16) as well as insects (AA15) strongly suggests that LPMOs might also be involved in biological processes such as overcoming plant defenses. In this review, we aim to give a comprehensive overview of the potential role of different LPMO families from the perspective of plant defense and their multiple implications in devising new strategies for achieving crop protection from plant pathogens and insect pests.
Major fungal pathogens causing devastating diseases in crop plants contain multiple AA9 LPMOs where they may be factors in pathogenesis.Significant upregulation of AA9 genes during pathogen invasion and during change from biotrophic to necrotrophic phase suggest roles in initiation and disease progression.The recent discovery of AA15 and AA16 LPMOs in arthropods and oomycetes, respectively, expand the taxa where LPMOs occur.Characterizing AA16 LPMOs in oomycetes provide opportunities in advancing our understanding of evolutionary aspects of host–pathogen interactions.Both sucking and chewing insect pests encode AA15 LPMOs and some are remarkably conserved across species.Targeting pathogens and pests through silencing of LPMOs and other biotechnological approaches provide new avenues for management and control of pests and diseases.
The present genetic diversity of commensal rodent populations is often used to inform the invasion histories of these species, and as a proxy for historical events relating to the movement of people ...and goods. These studies assume that modern genetic diversity generally reflects early colonising events. We investigate this idea by sequencing the mitochondrial DNA of rodent bones found in a 19th-century archaeological site in The Rocks area of Sydney, Australia, the location of the first historical European port (Port Jackson) in Australasia. We also interpret the history of rodent invasions in New Zealand based on this evidence, as Sydney was the primary port from which European boats sailed to New Zealand. We identified 19th-century bones from two species, Norway rats (
Rattus norvegicus
) and house mice (
Mus musculus domesticus
). We found six historical genetic haplotypes in the 39 Norway rats, showing either multiple early introductions or a diverse initial founding population. One of them was identical with Norhap01 common in the North Island of New Zealand, but none was like the haplotype Norhap02 found throughout the South Island. We found three haplotypes in seven house mice, all belonging to the dominant subspecies established in Australia,
M.m. domesticus
. We had few modern Norway rat and house mouse DNA sequences from Sydney, but those we had did tentatively support the hypotheses that (1) modern samples can represent at least a preliminary estimate of historical diversities and origins, and (2) Asian haplotypes of both Norway rats and of house mice reached the South Island of New Zealand early in colonial times direct from China rather than through Port Jackson.
Alpine ecosystems are frequently characterized by an abundance of wing‐reduced insect species, but the drivers of this biodiversity remain poorly understood. Insect wing reduction in these ...environments has variously been attributed to altitude, temperature, isolation, habitat stability or decreased habitat size. We used fine‐scale ecotypic and genomic analyses, along with broad‐scale distributional analyses of ecotypes, to unravel the ecological drivers of wing reduction in the wing‐dimorphic stonefly Zelandoperla fenestrata complex. Altitudinal transects within populations revealed dramatic wing reduction over very fine spatial scales, tightly linked to the alpine treeline. Broad biogeographical analyses confirm that the treeline has a much stronger effect on these ecotype distributions than altitude per se. Molecular analyses revealed parallel genomic divergence between vestigial‐winged (high altitude) and full‐winged (low altitude) ecotypes across distinct streams. These data thus highlight the role of the alpine treeline as a key driver of rapid speciation, providing a new model for ecological diversification along exposure gradients.
see also the Perspective by Emerson et al.
The house mouse (Mus musculus) provides a fascinating system for studying both the genomic basis of reproductive isolation, and the patterns of human-mediated dispersal. New Zealand has a complex ...history of mouse invasions, and the living descendants of these invaders have genetic ancestry from all three subspecies, although most are primarily descended from M. m. domesticus. We used the GigaMUGA genotyping array (approximately 135 000 loci) to describe the genomic ancestry of 161 mice, sampled from 34 locations from across New Zealand (and one Australian city—Sydney). Of these, two populations, one in the south of the South Island, and one on Chatham Island, showed complete mitochondrial lineage capture, featuring two different lineages of M. m. castaneus mitochondrial DNA but with only M. m. domesticus nuclear ancestry detectable. Mice in the northern and southern parts of the North Island had small traces (approx. 2–3%) of M. m. castaneus nuclear ancestry, and mice in the upper South Island had approximately 7–8% M. m. musculus nuclear ancestry including some Y-chromosomal ancestry—though no detectable M. m. musculus mitochondrial ancestry. This is the most thorough genomic study of introduced populations of house mice yet conducted, and will have relevance to studies of the isolation mechanisms separating subspecies of mice.
Wing polymorphism is a prominent feature of numerous insect groups, but the genomic basis for this diversity remains poorly understood. Wing reduction is a commonly observed trait in many species of ...stoneflies, particularly in cold or alpine environments. The widespread New Zealand stonefly Zelandoperla fenestrata species group (Z. fenestrata, Z. tillyardi, Z. pennulata) contains populations ranging from fully winged (macropterous) to vestigial-winged (micropterous), with the latter phenotype typically associated with high altitudes. The presence of flightless forms on numerous mountain ranges, separated by lowland fully winged populations, suggests wing reduction has occurred multiple times. We use Genotyping by Sequencing (GBS) to test for genetic differentiation between fully winged (n = 62) and vestigial-winged (n = 34) individuals, sampled from a sympatric population of distinct wing morphotypes, to test for a genetic basis for wing morphology. While we found no population genetic differentiation between these two morphotypes across 6,843 SNP loci, we did detect several outlier loci that strongly differentiated morphotypes across independent tests. These findings indicate that small regions of the genome are likely to be highly differentiated between morphotypes, suggesting a genetic basis for wing reduction. Our results provide a clear basis for ongoing genomic analysis to elucidate critical regulatory pathways for wing development in Pterygota.
Facial prosthesis research uses a wide variety of outcome measures, which results in challenges when comparing the effectiveness of interventions among studies. Consensus is lacking regarding the ...most appropriate and meaningful outcome measures to use in facial prosthesis research to capture important perspectives.
The purpose of the systematic review was to identify and synthesize outcome measures used in facial prosthesis research.
Electronic searches were performed in 11 databases (including nonpeer-reviewed literature). The citations were searched, and expert societies were contacted to identify additional studies. Inclusion criteria comprised studies of participants with facial defects who required or had received prosthetic rehabilitation with an external facial prosthesis. Exclusion criteria comprised participants with ocular prostheses, case reports, case series with fewer than 5 participants, laboratory-based studies, and studies published before 1980. Study selection was performed independently by 2 reviewers. Discrepancies were resolved through discussion or by a third reviewer. Outcome measures were synthesized with a categorization approach based on the perspective, theme, and subtheme of the outcome measures. Quality assessment was performed with an appraisal tool that enabled evaluation of studies with diverse designs.
Database searching identified 13 058 records, and 7406 remained after duplications were removed. After initial screening, 189 potentially relevant records remained, and 186 full texts were located (98% retrieval rate). After full-text screening, 124 records were excluded. Citation searches and contact with expert societies identified 4 further records. In total, 69 articles (grouped into 65 studies) were included. Studies were categorized as per the perspective of their outcome measures, with the following findings: patient-reported (74% of studies), clinical indicators (34%), clinician-reported (8%), multiple viewpoints (6%), and independent observer-reported (3%). Patient-reported outcome measures included tools to assess satisfaction, quality of life, and psychologic health. Variability in the choice of outcome measures was evident among the studies, with many self-designed, unvalidated, condition-specific questionnaires reported. A greater number of outcome measure themes emerged over time; themes such as service delivery and health state utility have recently been evaluated.
Over the past 40 years, facial prosthesis research has focused on patient-reported outcome measures. Outcome measures relating to other perspectives have been used less frequently, although new themes appear to be emerging in the literature. Future research should use outcome measures with appropriate measurement properties for use with facial prosthetics.
Ko ngā ingoa Linnaean ka noho hei pou mō te pārongo e pā ana ki ngā momo koiora. He mea nui rawa kia mārama, kia ahurei hoki ngā ingoa pūnaha whakarōpū. Me pēnei kia taea ai te whakawhitiwhiti kōrero ...ā-pūtaiao nei. Nā tēnā kua āta whakatakotohia ētahi ture, tohu ārahi hoki hei whakahaere i ngā whakamārama pūnaha whakarōpū. Kua whakamanahia ēnei kia noho hei tikanga mō te ao pūnaha whakarōpū. Heoi, arā noa atu ngā hua o te tukanga waihanga ingoa Linnaean mō ngā momo koiora i tua atu i te tautohu noa i ngā momo koiora. Ko tētahi o aua hua ko te whakarau: (1) i te mātauranga o ngā iwi takatake, (2) i te kōrero rānei mai i te iwi o te rohe, (3) i ngā kōrero pūrākau rānei mō te wāhi whenua. Kei te piki haere tēnei āhua whakamahinga hei āwhina kia whakamanahia ngā iwi taketake i roto i te mahi pūnaha whakarōpū. Nā tēnā ka whakamanawahia te iwi i runga i tōna mōhio he hoa-rangapū ia i roto i te mahi whiriwhiri ingoa kōrero pūrākau. Kua roa noa atu a Aotearoa e whakamahi ana i te reo taketake o Aotearoa / Rēkohu rānei i roto i te mahi whakamārama pūnaha whakarōpū. Engari ahakoa tērā, kāore i te pērā rawa te kaha o te ao pūnaha whakarōpū ki te whakapiri mai ki ngā iwi taketake i roto i tēnei tukanga. Kei roto i te rangahau nei i arotakengia ngā tau ki muri, me te aha, ko tōna kitenga e pēnei na: mai i tau 1830, neke atu i te 1,288 ngā wā kua whakamahia te reo Māori, te reo Moriori rānei i roto i te pūnaha whakarōpū. Kei te piki haere hoki tēnei tatauranga. Ko tētahi kitenga o te arotake nei, ko te tohu atu i ētahi āhuatanga whakamahi i te reo Māori, reo Moriori hoki. Hei tauira: (1) ngā momo whakarerekētanga whakamahi o ngā kupu “Māori, Moriori” rānei hei tohu atu tērā i ahu mai tēnā momo koiora mai i Aotearoa. (2) ngā ingoa kōrero pūrākau Māori / Moriori mō ngā momo koiora; (3) ngā ingoa whenua Māori / Moriori hoki e whai hononga ana ki ngā momo koiora (4) ētahi ingoa whakamārama i hangaia mai i ngā kupu Māori / Moriori hoki me (5) ētahi ingoa hou kua whakaarahia e te iwi e mahi ngātahi nei ki te taha o ngā kaipūnaha whakarōpū. Ko tā mātou nei, he arotahi he tautoko hoki i te tuarima o ēnei āhuatanga. He pūnaha mahi ngātahi tēnei hei whakamārama i ngā momo koiora. Ka pēnei mā te āta titiro ki ētahi tauira. Ko ēnei tauira ka whakamiramira i ngā huanga me ngā uauatanga o tēnei pūnaha mahi ngātahi hei whakamārama i ngā momo koiora. Ka tuku āwhina hoki mātou hei ārahi i ngā kaipūnaha whakarōpū kia pai ake te whakapiri atu ki te iwi mō te whakamārama momo koiora. Ka mātua matapakihia ngā take e pā ana ki te “whakarōmahanga” o ētahi kupu Māori, te whakamahinga o te tohutō, me te hiranga hoki kia whakapiri atu ki te iwi mā te roanga atu o te tukanga whakaingoa. Ko tā mātou hoki e tohutohu nei kia kohia katoatia ngā ingoa reo Māori, reo Moriori hoki kia noho hei rārangi tohutoro mō te wā anamata hei ārahi i te whakamahinga, hei hanga pātengi raraunga hoki mō Aotearoa. Ko tēnei pātengi raraunga me māmā te tomo atu, me wātea hoki hei rauemi whakamahi mā te kaiarangahau.
Linnaean names are an anchor for biological information about a species, and having clear, unique, taxonomic names is vital for scientific communication. Accordingly, there are specific rules and guidelines enshrined in codes that govern nomenclature and taxonomic description. The process of creating Linnean names for species can however provide multiple functions beyond identification, including the incorporation of cultural knowledge, vernacular and place names as epithets. Increasingly this usage helps engage and empower Indigenous cultures in taxonomic work through a shared sense of ownership over the species and the choice of epithet. Aotearoa New Zealand has a long history of using both the indigenous Maori language – te reo, and the Indigenous language of Rekohu (the Chatham Islands) – ta re Moriori, in taxonomic description, but not necessarily one of engaging Maori and Moriori in this process. Here we review this history, finding that since its first use in 1830, te reo and ta re have been incorporated over 1288 times within taxonomic nomenclature, and that this usage is increasing. We identify five central ways in which te reo and ta re have been incorporated, including the use of (1) variations of the words “Maori” and “Moriori” to designate Aotearoa New Zealand origins, (2) Maori / Moriori vernacular names for species, (3) Maori / Moriori place names associated with species, (4) novel descriptive names created from Māori and Moriori words, (5) novel names suggested by Maori in collaboration with taxonomists. We focus on and promote this last, collaborative system for species description through case studies that highlighting the advantages and the potential challenges of this process, and we provide guidance for taxonomists to better engage with iwi / imi in species description. Specifically, we discuss issues relating to the Latinisation of Maori words, the use of macrons, and the need for engagement of iwi / imi throughout the naming process. We also recommend creation of a central depository to log te reo and ta re names to act as a reference for future usage and provide a readily accessible electronic database for Aotearoa New Zealand people and researchers to use.
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