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Gilbert E, Rumbold A, Campbell S, Boyle JA, Grzeskowiak L. Management of encounters related to subfertility and infertility in Australian general practice: a focus on Aboriginal and Torres Strait Islander females. BMC Womens Health 2023; 23:410. [PMID: 37542253 PMCID: PMC10403831 DOI: 10.1186/s12905-023-02559-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2023] [Accepted: 07/20/2023] [Indexed: 08/06/2023] Open
Abstract
OBJECTIVE To investigate the management of subfertility and infertility among Aboriginal and Torres Strait Islander females attending Australian general practice. METHODS Cross-sectional study of 1,258,581 women (18-49 years) attending general practice between January 2011 and June 2019, utilising data from NPS MedicineWise MedicineInsight, a national general practice database in Australia. RESULTS The prevalence of subfertility/infertility encounters was lower for Aboriginal and Torres Strait Islander females (12.37 per 1,000) than for non-Indigenous females (16.62 per 1,000). Aboriginal and Torres Strait Islander females with a subfertility/infertility encounter were younger and more likely to live outside Major cities and in areas of socioeconomic disadvantage than non-Indigenous females. Rates of prescribed infertility medications were not different between groups, however Aboriginal and Torres Strait Islander females were more likely to receive a pelvic ultrasound (24.30% vs. 19.90%); tests for luteinizing hormone (31.89% vs. 25.65%); testosterone (14.93% vs. 9.96%) and; glycated haemoglobin (HbA1c) (6.32% vs. 3.41%),but less likely to receive an anti-müllerian hormone test (2.78% vs. 7.04%). CONCLUSIONS Lower encounter rates for infertility/subfertility among Aboriginal and Torres Strait Islander peoples may indicate access issues, preferred use of Aboriginal community-controlled health centres or younger average age at first birth and thus less age-related infertility. IMPLICATIONS FOR PUBLIC HEALTH Future efforts should focus on maximising the inclusiveness of infertility surveillance. There is also a need for further research into the experiences of and preferences for infertility care and associated barriers among Aboriginal and Torres Strait Islander people.
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Affiliation(s)
- E Gilbert
- Faculty of Health, Charles Darwin University, Darwin, NT, Australia.
| | - A Rumbold
- SAHMRI Women and Kids, South Australian Health and Medical Research Institute, Adelaide, SA, Australia
| | - S Campbell
- Faculty of Health, Charles Darwin University, Darwin, NT, Australia
| | - J A Boyle
- Eastern Health Clinical School, Monash University, Melbourne, VIC, Australia
| | - L Grzeskowiak
- SAHMRI Women and Kids, South Australian Health and Medical Research Institute, Adelaide, SA, Australia
- College of Medicine and Public Health, Flinders University, Adelaide, SA, Australia
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Lord L, McKernon D, Grzeskowiak L, Kirsa S, Ilomaki J. 26: Caregiver depression and anxiety prevalence in cystic fibrosis: A systematic review and meta-analysis investigating epidemiology. J Cyst Fibros 2021. [DOI: 10.1016/s1569-1993(21)01451-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
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Kamieniczna M, Fraczek M, Budzinska M, Wojnar L, Nakonechnyy J, Grzeskowiak L, Gill K, Havrylyuk A, Nowicka-Bauer K, Piasecka M, Nakonechnyy A, Chopyak V, Kurpisz M. Antisperm antibodies are not frequently induced in semen of men with testicular hyperthermia. J Reprod Immunol 2018. [DOI: 10.1016/j.jri.2018.05.011] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/28/2022]
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Tao B, Morris S, Grzeskowiak L, Smith W, Forsyth K, Chataway T. Sequential hypoallergenic boiled peanut and roasted peanut oral immunotherapy. Clin Exp Allergy 2017; 47:1501-1504. [DOI: 10.1111/cea.13024] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- B. Tao
- Department of Paediatrics and Child Health; Flinders University of South Australia; Bedford Park SA Australia
- Department of Human Physiology; Flinders University of South Australia; Bedford Park SA Australia
| | - S. Morris
- Department of Paediatrics and Child Health; Flinders University of South Australia; Bedford Park SA Australia
| | - L. Grzeskowiak
- Robinson Research Institute; University of Adelaide; Adelaide SA Australia
| | - W. Smith
- Department and School of Medicine; University of Adelaide; Adelaide SA Australia
| | - K. Forsyth
- Department of Paediatrics and Child Health; Flinders University of South Australia; Bedford Park SA Australia
| | - T. Chataway
- Department of Human Physiology; Flinders University of South Australia; Bedford Park SA Australia
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Moretto M, Sonego P, Pilati S, Malacarne G, Costantini L, Grzeskowiak L, Bagagli G, Grando MS, Moser C, Engelen K. VESPUCCI: Exploring Patterns of Gene Expression in Grapevine. Front Plant Sci 2016; 7:633. [PMID: 27242836 PMCID: PMC4862315 DOI: 10.3389/fpls.2016.00633] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/29/2016] [Accepted: 04/25/2016] [Indexed: 05/20/2023]
Abstract
Large-scale transcriptional studies aim to decipher the dynamic cellular responses to a stimulus, like different environmental conditions. In the era of high-throughput omics biology, the most used technologies for these purposes are microarray and RNA-Seq, whose data are usually required to be deposited in public repositories upon publication. Such repositories have the enormous potential to provide a comprehensive view of how different experimental conditions lead to expression changes, by comparing gene expression across all possible measured conditions. Unfortunately, this task is greatly impaired by differences among experimental platforms that make direct comparisons difficult. In this paper, we present the Vitis Expression Studies Platform Using COLOMBOS Compendia Instances (VESPUCCI), a gene expression compendium for grapevine which was built by adapting an approach originally developed for bacteria, and show how it can be used to investigate complex gene expression patterns. We integrated nearly all publicly available microarray and RNA-Seq expression data: 1608 gene expression samples from 10 different technological platforms. Each sample has been manually annotated using a controlled vocabulary developed ad hoc to ensure both human readability and computational tractability. Expression data in the compendium can be visually explored using several tools provided by the web interface or can be programmatically accessed using the REST interface. VESPUCCI is freely accessible at http://vespucci.colombos.fmach.it.
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Affiliation(s)
- Marco Moretto
- Department of Computational Biology, Research and Innovation Center, Fondazione Edmund MachTrento, Italy
- Department of Biology, University of PadovaPadova, Italy
| | - Paolo Sonego
- Department of Computational Biology, Research and Innovation Center, Fondazione Edmund MachTrento, Italy
| | - Stefania Pilati
- Department of Genomics and Biology of Fruit Crop, Research and Innovation Center, Fondazione Edmund MachTrento, Italy
| | - Giulia Malacarne
- Department of Genomics and Biology of Fruit Crop, Research and Innovation Center, Fondazione Edmund MachTrento, Italy
| | - Laura Costantini
- Department of Genomics and Biology of Fruit Crop, Research and Innovation Center, Fondazione Edmund MachTrento, Italy
| | - Lukasz Grzeskowiak
- Department of Genomics and Biology of Fruit Crop, Research and Innovation Center, Fondazione Edmund MachTrento, Italy
| | - Giorgia Bagagli
- Department of Genomics and Biology of Fruit Crop, Research and Innovation Center, Fondazione Edmund MachTrento, Italy
| | - Maria Stella Grando
- Department of Genomics and Biology of Fruit Crop, Research and Innovation Center, Fondazione Edmund MachTrento, Italy
| | - Claudio Moser
- Department of Genomics and Biology of Fruit Crop, Research and Innovation Center, Fondazione Edmund MachTrento, Italy
| | - Kristof Engelen
- Department of Computational Biology, Research and Innovation Center, Fondazione Edmund MachTrento, Italy
- *Correspondence: Kristof Engelen,
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Ruknuddeen MI, Rajajee V, Ramadoss R, Grzeskowiak L, Rajagopalan R. Clinical characteristics and outcome of patients with status myoclonus following out of hospital cardiac arrest. Intensive Care Med Exp 2015. [PMCID: PMC4797146 DOI: 10.1186/2197-425x-3-s1-a198] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022] Open
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Grzeskowiak L, Stephan W, Rose LE. Epistatic selection and coadaptation in the Prf resistance complex of wild tomato. Infect Genet Evol 2014; 27:456-71. [PMID: 24997333 DOI: 10.1016/j.meegid.2014.06.019] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/20/2013] [Revised: 06/24/2014] [Accepted: 06/25/2014] [Indexed: 11/26/2022]
Abstract
Natural selection imposed by pathogens is a strong and pervasive evolutionary force structuring genetic diversity within their hosts' genomes and populations. As a model system for understanding the genomic impact of host-parasite coevolution, we have been studying the evolutionary dynamics of disease resistance genes in wild relatives of the cultivated tomato species. In this study, we investigated the sequence variation and evolutionary history of three linked genes involved in pathogen resistance in populations of Solanum peruvianum (Pto, Fen, and Prf). These genes encode proteins, which form a multimeric complex and together activate defense responses. We used standard linkage disequilibrium, as well as partitioning of linkage disequilibrium components across populations and correlated substitution analysis to identify amino acid positions that are candidates for coevolving sites between Pto/Fen and Prf. These candidates were mapped onto known and predicted structures of Pto, Fen and Prf to visualize putative coevolving regions between proteins. We discuss the functional significance of these coevolving pairs in the context of what is known from previous structure-function studies of Pto, Fen and Prf.
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Affiliation(s)
- Lukasz Grzeskowiak
- Section of Evolutionary Biology, Ludwig Maximilian University Munich, Grosshadernerstr. 2, 82152 Planegg, Germany; Center for Research and Innovation, Fondazione Edmund Mach, Via E. Mach 1, 38010 San Michele all'Adige, Italy
| | - Wolfgang Stephan
- Section of Evolutionary Biology, Ludwig Maximilian University Munich, Grosshadernerstr. 2, 82152 Planegg, Germany
| | - Laura E Rose
- Section of Evolutionary Biology, Ludwig Maximilian University Munich, Grosshadernerstr. 2, 82152 Planegg, Germany; Institute of Population Genetics, Heinrich Heine University Duesseldorf, Universitaetsstr. 1, 40225 Duesseldorf, Germany.
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Grzeskowiak L, Costantini L, Lorenzi S, Grando MS. Candidate loci for phenology and fruitfulness contributing to the phenotypic variability observed in grapevine. Theor Appl Genet 2013; 126:2763-76. [PMID: 23918063 PMCID: PMC3825586 DOI: 10.1007/s00122-013-2170-1] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/17/2013] [Accepted: 07/20/2013] [Indexed: 05/21/2023]
Abstract
In this study, we identified several genes, which potentially contribute to phenological variation in the grapevine. This may help to maintain consistent yield and suitability of particular varieties in future climatic conditions. The timing of major developmental events in fruit crops differs with cultivar, weather conditions and ecological site. This plasticity results also in diverse levels of fruitfulness. Identifying the genetic factors responsible for phenology and fertility variation may help to improve these traits to better match future climates. Two Vitis vinifera populations, an F1 progeny of Syrah × Pinot Noir and a phenological core collection composed of 163 cultivars, were evaluated for phenology and fertility subtraits during three to six growing seasons in the same geographical location. The phenotypic variability in the core collection mostly overlapped with that observed in the F1 progeny and several accessions had exceeding values of phenological response. The progeny population was used together with SSR and SNP markers to map quantitative trait loci (QTLs). This allowed us to detect nine QTLs related to budburst, flowering beginning, the onset of ripening (véraison) and total fertility, explaining from 8 to 44 % of phenotypic variation. A genomic region on chromosome 15 was associated with budburst and véraison and two QTLs for fruitfulness were located on chromosomes 3 and 18. Several genes potentially affecting fertility and the timing of fruit development were proposed, based on their position and putative function. Allelic variation at these candidate loci may be explored by sampling accessions from the core collection.
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Affiliation(s)
- Lukasz Grzeskowiak
- Centre for Research and Innovation, Fondazione Edmund Mach (FEM), San Michele all'Adige, Italy,
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Emanuelli F, Lorenzi S, Grzeskowiak L, Catalano V, Stefanini M, Troggio M, Myles S, Martinez-Zapater JM, Zyprian E, Moreira FM, Grando MS. Genetic diversity and population structure assessed by SSR and SNP markers in a large germplasm collection of grape. BMC Plant Biol 2013; 13:39. [PMID: 23497049 PMCID: PMC3610244 DOI: 10.1186/1471-2229-13-39] [Citation(s) in RCA: 150] [Impact Index Per Article: 13.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/26/2012] [Accepted: 02/27/2013] [Indexed: 05/18/2023]
Abstract
BACKGROUND The economic importance of grapevine has driven significant efforts in genomics to accelerate the exploitation of Vitis resources for development of new cultivars. However, although a large number of clonally propagated accessions are maintained in grape germplasm collections worldwide, their use for crop improvement is limited by the scarcity of information on genetic diversity, population structure and proper phenotypic assessment. The identification of representative and manageable subset of accessions would facilitate access to the diversity available in large collections. A genome-wide germplasm characterization using molecular markers can offer reliable tools for adjusting the quality and representativeness of such core samples. RESULTS We investigated patterns of molecular diversity at 22 common microsatellite loci and 384 single nucleotide polymorphisms (SNPs) in 2273 accessions of domesticated grapevine V. vinifera ssp. sativa, its wild relative V. vinifera ssp. sylvestris, interspecific hybrid cultivars and rootstocks. Despite the large number of putative duplicates and extensive clonal relationships among the accessions, we observed high level of genetic variation. In the total germplasm collection the average genetic diversity, as quantified by the expected heterozygosity, was higher for SSR loci (0.81) than for SNPs (0.34). The analysis of the genetic structure in the grape germplasm collection revealed several levels of stratification. The primary division was between accessions of V. vinifera and non-vinifera, followed by the distinction between wild and domesticated grapevine. Intra-specific subgroups were detected within cultivated grapevine representing different eco-geographic groups. The comparison of a phenological core collection and genetic core collections showed that the latter retained more genetic diversity, while maintaining a similar phenotypic variability. CONCLUSIONS The comprehensive molecular characterization of our grape germplasm collection contributes to the knowledge about levels and distribution of genetic diversity in the existing resources of Vitis and provides insights into genetic subdivision within the European germplasm. Genotypic and phenotypic information compared in this study may efficiently guide further exploration of this diversity for facilitating its practical use.
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Affiliation(s)
- Francesco Emanuelli
- Department of Genomics and Biology of Fruit Crops, IASMA Research and Innovation Centre, Fondazione Edmund Mach - Via E. Mach 1, San Michele all'Adige, TN, 38010, Italy
| | - Silvia Lorenzi
- Department of Genomics and Biology of Fruit Crops, IASMA Research and Innovation Centre, Fondazione Edmund Mach - Via E. Mach 1, San Michele all'Adige, TN, 38010, Italy
| | - Lukasz Grzeskowiak
- Department of Genomics and Biology of Fruit Crops, IASMA Research and Innovation Centre, Fondazione Edmund Mach - Via E. Mach 1, San Michele all'Adige, TN, 38010, Italy
| | - Valentina Catalano
- Department of Genomics and Biology of Fruit Crops, IASMA Research and Innovation Centre, Fondazione Edmund Mach - Via E. Mach 1, San Michele all'Adige, TN, 38010, Italy
| | - Marco Stefanini
- Department of Genomics and Biology of Fruit Crops, IASMA Research and Innovation Centre, Fondazione Edmund Mach - Via E. Mach 1, San Michele all'Adige, TN, 38010, Italy
| | - Michela Troggio
- Department of Genomics and Biology of Fruit Crops, IASMA Research and Innovation Centre, Fondazione Edmund Mach - Via E. Mach 1, San Michele all'Adige, TN, 38010, Italy
| | - Sean Myles
- Department of Plant and Animal Sciences, Faculty of Agriculture, Dalhousie University, Truro, Nova Scotia, B2N 5E3, Canada
| | - José M Martinez-Zapater
- Instituto de Ciencias de la Vid y del Vino (CSIC, UR, Gobierno de La Rioja), C/ Madre de dios 51, Logroño, 26006, Spain
| | - Eva Zyprian
- JKI Institute for Grapevine Breeding Geilweilerhof, Siebeldingen, 76833, Germany
| | - Flavia M Moreira
- Department of Genomics and Biology of Fruit Crops, IASMA Research and Innovation Centre, Fondazione Edmund Mach - Via E. Mach 1, San Michele all'Adige, TN, 38010, Italy
- Instituto Federal de Santa Catarina, Rua José Lino Kretzer 608 - Praia Comprida, São José, Santa Catarina, 88130-310, Brasil
| | - M Stella Grando
- Department of Genomics and Biology of Fruit Crops, IASMA Research and Innovation Centre, Fondazione Edmund Mach - Via E. Mach 1, San Michele all'Adige, TN, 38010, Italy
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Abstract
Studies combining comparative genomics and information on biochemical pathways have revealed that protein evolution can be affected by the amount of pleiotropy associated with a particular gene. The amount of pleiotropy, in turn, can be a function of the position at which a gene operates in a pathway and the pathway structure. Genes that serve as convergence points and have several partners (so-called hubs) often show the greatest constraint and hence the slowest rate of protein evolution. In this article, we have studied five genes (Pto, Fen, Rin4, Prf and Pfi) in a defence signalling network in a wild tomato species, Solanum peruvianum. These proteins operate together and contribute to bacterial resistance in tomato. We predicted that Prf (and possibly Pfi), which serves as a convergence point for upstream signals, should show greater evolutionary constraint. However, we found instead that two of the genes which potentially interact with pathogen ligands, Rin4 and Fen, have evolved under strong evolutionary constraint, whereas Prf and Pfi, which probably function further downstream in the network, show evidence of balancing selection. This counterintuitive observation may be probable in pathogen defence networks, because pathogens may target positions throughout resistance networks to manipulate or nullify host resistance, thereby leaving a molecular signature of host-parasite co-evolution throughout a single network.
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Affiliation(s)
- Laura E Rose
- Section of Evolutionary Biology, LMU Munich, Planegg, Germany.
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