Direct and indirect contributions of executive function to word decoding and reading comprehension in kindergarten

Extant research is increasingly recognizing the contribution of executive function (EF) to reading comprehension alongside established predictors like word decoding and oral language. The nature of the association between EF and reading comprehension is commonly investigated in older children and in those with reading impairments. However, less is known about this relationship in emerging readers in kindergarten, where word decoding and reading comprehension are highly intertwined. Moreover, a better understanding of the mechanisms by which EF influences reading comprehension is needed. The present study investigated direct contributions of EF to reading comprehension, as well as indirect contributions via word decoding in 97 kindergarteners. Results indicated that there was a significant indirect effect of EF on reading comprehension, with word decoding mediating this association. The direct contribution of EF to reading comprehension was not significant. Implications for reading instruction and intervention for early readers are discussed.NICHDUnited States Department of Health & Human ServicesNational Institutes of Health (NIH) - USANIH Eunice Kennedy Shriver National Institute of Child Health & Human Development (NICHD) [R01HD078351, R01HD086168, R01HD096261, R01HD094834, P50HD052120]; National Science FoundationNational Science Foundation (NSF) [NSF-1540854]; University of California Office of the President Multicampus Research Programs and Initiatives AwardUniversity of California System [MRP-17-454925]; Oak Foundation [ORIO-16-012, OCAY-19-215]; UCSF Dyslexia Center; Dyslexia Training Institute; The Potter Family; ALTA; San Mateo County of Education; IMBES; SfN; Hyde Park Day School; University of Chicago Laboratory Schools24 month embargo; published online: 25 September 2019This item from the UA Faculty Publications collection is made available by the University of Arizona with support from the University of Arizona Libraries. If you have questions, please contact us at [email protected]

Frameshift Variant in MFSD12 Explains the Mushroom Coat Color Dilution in Shetland Ponies

Mushroom is a unique coat color phenotype in Shetland Ponies characterized by the dilution of the chestnut coat color to a sepia tone and is hypothesized to be a recessive trait. A genome wide association study (GWAS), utilizing the Affymetrix 670K array (MNEc670k) and a single locus mixed linear model analysis (EMMAX), identified a locus on ECA7 for further investigation (Pcorrected = 2.08 × 10−10). This locus contained a 3 Mb run of homozygosity in the 12 mushroom ponies tested. Analysis of high throughput Illumina sequencing data from one mushroom Shetland pony compared to 87 genomes from horses of various breeds, uncovered a frameshift variant, p.Asp201fs, in the MFSD12 gene encoding the major facilitator superfamily domain containing 12 protein. This variant was perfectly concordant with phenotype in 96 Shetland Ponies (P = 1.15 × 10−22), was identified in the closely related Miniature Horse for which the mushroom phenotype is suspected to occur (fmu = 0.02), and was absent in 252 individuals from seven additional breeds not reported to have the mushroom phenotype. MFSD12 is highly expressed in melanocytes and variants in this gene in humans, mice, and dogs impact pigmentation. Given the role of MFSD12 in melanogenesis, we propose that p.Asp201fs is causal for the dilution observed in mushroom ponies

The Cysteine Protease α-Clostripain is Not Essential for the Pathogenesis of Clostridium perfringens-Mediated Myonecrosis

Clostridium perfringens is the causative agent of clostridial myonecrosis or gas gangrene and produces many different extracellular toxins and enzymes, including the cysteine protease α-clostripain. Mutation of the α-clostripain structural gene, ccp, alters the turnover of secreted extracellular proteins in C. perfringens, but the role of α-clostripain in disease pathogenesis is not known. We insertionally inactivated the ccp gene C. perfringens strain 13 using TargeTron technology, constructing a strain that was no longer proteolytic on skim milk agar. Quantitative protease assays confirmed the absence of extracellular protease activity, which was restored by complementation with the wild-type ccp gene. The role of α-clostripain in virulence was assessed by analysing the isogenic wild-type, mutant and complemented strains in a mouse myonecrosis model. The results showed that although α-clostripain was the major extracellular protease, mutation of the ccp gene did not alter either the progression or the development of disease. These results do not rule out the possibility that this extracellular enzyme may still have a role in the early stages of the disease process

Crop Updates 2004 - Cereals

This session covers twenty eight papers from different authors: PLENARY 1. Declining profitability in continuous cropping systems. Is more wheat the answer on Duplex soil? Dr Wal Anderson, Department of Agriculture 2. Disease implications of extending the wheat phase in low-medium rainfall areas, Dr Vivian Vanstone and Dr Robert Loughman, Department of Agriculture 3. Prolonged wheat phase on duplex soils – where do weeds set the boundary? Vanessa Stewart, Department of Agriculture WHEAT AGRONOMY 4. Management of small grain screenings in wheat, Dr Wal Anderson and Dr Darshan Sharma, Department of Agriculture 5. Agronomic responses of new wheat varieties, Christine Zaicou-Kunesch, Dr Darshan Sharma, Brenda Shackley, Dr Mohammad Amjad, Dr Wal Anderson and Steve Penny,Department of Agriculture 6. Managing wheat yield reduction from wide rows, Dr Mohammad Amjad and Dr Wal Anderson, Department of Agriculture 7. Row spacing and stubble effect on wheat yield and ryegrass seed set, Glen Riethmuller, Department of Agriculture 8. Grain protein management – lessons learnt on the south coast, Jeremy Lemon, Department of Agriculture 9. Unravelling the mysteries of optimum seed rates, Dr Wal Anderson, Dr Darshan Sharma, Brenda Shackley and Mario D’Antuono, Department of Agriculture 10. Agronomic features for growing better wheat – south east agricultural region 2003, Dr Mohammad Amjad, Veronika Reck and Ben Curtis, Department of Agriculture 11. Agronomic responses of new wheat varieties – great southern agricultural region 2003, Brenda Shackley and Judith Devenish, Department of Agriculture 12. Variety specific responses of new wheat varieties – central agricultural region 2003, Dr Darshan Sharma and Dr Wal Anderson, Department of Agriculture 13. Agronomic responses of new wheat varieties – northern agricultural region 2003, Christine Zaicou-Kunesch, Melaine Kupsch and Anne Smith, Department of Agriculture BARLEY AND OAT AGRONOMY 14. Gairdner for high rainfall – where does Baudin fit in? Blakely Paynter, Roslyn Jettnerand Leanne Schulz, Department of Agriculture 15. Oaten hay – varieties and agronomy, Blakely Paynter, Jocelyn Ball and Tom Sweeny, Department of Agriculture NUTRITION 16. In-furrow fungicide applications in liquid fertiliser, Dr Stephen Loss, CSBP Ltd 17. Elemental sulphur as a fertiliser source in Western Australia, Ashleigh Brooks1A, Justin Fuery2, Geoff Anderson3 and Prof Zed Rengel1,1UWA, 2Summit FertilizerFertilisers and 3Department of Agriculture 18. Genetic variation in potassium efficiency of barley, Paul Damon and Prof. Zed Rengel, Faculty of Natural and Agricultural Sciences, UWA 19. Managing protein through strategic N applications, Eddy Pol and Dr Stephen Loss, CSBP Ltd 20. Nitrogen management for wheat in high rainfall cropping areas, Narelle Hill1, Ray Tugwell1, Dr Wal Anderson1, Ron McTaggart1and Nathan Moyes2, 1Department of Agriculture and 2Landmark 21. Flag smut resistance in current WA wheat varieties, John Majewski and Dr Manisha Shankar, Department of Agriculture 22. Rust resistance update for wheat varieties in WA, Dr Manisha Shankar, John Majewski and Jamie Piotrowski, Department of Agriculture PESTS AND DISEASES 23. Stripe rust in WA – where was it and what can we learn from 2003? Dr Robert Loughman and Ciara Beard, Department of Agriculture 24. Foliar disease management – a key factor in the adoption of Baudin and Hamlin barley, Dr Kithsiri Jayasena, Dr Rob Loughman, Kazue Tanaka and Grey Poulish, Department of Agriculture 25. Validating aphid and virus risk forecasts for cereals, Dr Debbie Thackray, Rohan Prince and Dr Roger Jones, Department of Agriculture and Centre for Legumes in Mediterranean Agriculture HARVESTING 26. Swathing Gairdner barley at 30% moisture, Peter Nelson¹ and Nigel Metz², ¹Cooperative Bulk Handling and ² Fitzgerald Biosphere Group MODELLING 27. Development of a web based grower decision aid application for cereal growers, Dr Leisa Armstrong1, Yee Leong (Alex) Yung1and Dr Moin Salam2 1School of Computer and Information Science, Edith Cowan University; and 2Department of Agriculture 28. Wheat varieties updated in ‘Flowering Calculator’ – a model predicting flowering time, Brenda Shackley, Dr David Tennant, Dr Darshan Sharma and Christine Zaicou‑Kunesch, Department of Agricultur

A De Novo MITF Deletion Explains a Novel Splashed White Phenotype in an American Paint Horse.

Splashed white is a coat color pattern in horses characterized by extensive white patterning on the legs, belly, and face often accompanied by blue eyes and deafness. Three mutations in microphthalmia-associated transcription factor (MITF) and two mutations in Paired Box 3 (PAX3) have been identified that explain splashed white patterns (SW1-SW5). An American Paint Horse stallion with a splashed white phenotype and blue eyes, whose parents were not white patterned, was negative for the 5 known splashed white variants and other known white spotting alleles. This novel splashed white phenotype (SW6) was hypothesized to be caused by a de novo mutation in MITF or PAX3. Analysis of whole-genome sequencing using the EquCab3.0 reference genome for comparison identified an 8.7 kb deletion in MITF on ECA16 (NC_009159.3:g.21551060-21559770del). The deletion encompassed part of intron 7 through the 3' UTR of exon 9 of MITF, including the helix-loop-helix DNA-binding domain (ENSECAT00000006375.3). This variant is predicted to truncate protein and impair binding to DNA. Sanger sequencing confirmed the stallion was heterozygous for the MITF deletion. No single nucleotide polymorphisms (SNPs) or structural variants were identified in PAX3 or any of the other candidate genes that were unique to the stallion or predicted to affect protein function. Genotyping five of the stallion's splashed white offspring, including one all white foal, found that they were also heterozygous for the deletion. Given the role of MITF in producing white pattern phenotypes, and the predicted deleterious effect of this mutation, this 8.7 kb deletion is the likely causal variant for SW6

A framework to incorporate environmental effects into stock assessments informed by fishery-independent surveys: a case study with American lobster (Homarus americanus)

Stock assessments for a majority of the world’s fisheries often do not explicitly consider the effects of environmental conditions on target species, which can raise model uncertainty and potentially reduce forecasting quality. Model-based abundance indices were developed using a delta generalized linear mixed model that incorporates environmental variability for use in stock assessment to understand how the incorporation of environmental variability impacts our understanding of population dynamics. For this study, multiple model-based abundance indices were developed to test the incorporation of environmental covariates in a length-structured assessment of the American lobster (Homarus americanus) stock in the Gulf of Maine – Georges Bank on the possible improvement of stock assessment quality. Comparisons reveal that modelled indices with environmental covariates appear to be more precise than traditional indices, but model performance metrics and hindcasted fishery statuses revealed that these improvements to indices may not necessarily mean an improved assessment. Model-based abundance indices are not intrinsically better than design-based indices and should be tested for each species individually.The accepted manuscript in pdf format is listed with the files at the bottom of this page. The presentation of the authors' names and (or) special characters in the title of the manuscript may differ slightly between what is listed on this page and what is listed in the pdf file of the accepted manuscript; that in the pdf file of the accepted manuscript is what was submitted by the author

Direct and indirect contributions of executive function to word decoding and reading comprehension in kindergarten

Extant research is increasingly recognizing the contribution of executive function (EF) to reading comprehension alongside established predictors like word decoding and oral language. The nature of the association between EF and reading comprehension is commonly investigated in older children and in those with reading impairments. However, less is known about this relationship in emerging readers in kindergarten, where word decoding and reading comprehension are highly intertwined. Moreover, a better understanding of the mechanisms by which EF influences reading comprehension is needed. The present study investigated direct contributions of EF to reading comprehension, as well as indirect contributions via word decoding in 97 kindergarteners. Results indicated that there was a significant indirect effect of EF on reading comprehension, with word decoding mediating this association. The direct contribution of EF to reading comprehension was not significant. Implications for reading instruction and intervention for early readers are discussed.NICHDUnited States Department of Health & Human ServicesNational Institutes of Health (NIH) - USANIH Eunice Kennedy Shriver National Institute of Child Health & Human Development (NICHD) [R01HD078351, R01HD086168, R01HD096261, R01HD094834, P50HD052120]; National Science FoundationNational Science Foundation (NSF) [NSF-1540854]; University of California Office of the President Multicampus Research Programs and Initiatives AwardUniversity of California System [MRP-17-454925]; Oak Foundation [ORIO-16-012, OCAY-19-215]; UCSF Dyslexia Center; Dyslexia Training Institute; The Potter Family; ALTA; San Mateo County of Education; IMBES; SfN; Hyde Park Day School; University of Chicago Laboratory Schools24 month embargo; published online: 25 September 2019This item from the UA Faculty Publications collection is made available by the University of Arizona with support from the University of Arizona Libraries. If you have questions, please contact us at [email protected]