@article{yamamoto_huang_anholt_mackay_2024, title={Article The genetic basis of variation in Drosophila melanogaster mating behavior}, volume={27}, ISSN={["2589-0042"]}, DOI={10.1016/j.isci.2024.109837}, abstractNote={Mating behavior is an essential fitness trait. We used the inbred, sequenced lines of the}, number={5}, journal={ISCIENCE}, author={Yamamoto, Akihiko and Huang, Wen and Anholt, Robert R. H. and Mackay, Trudy F. C.}, year={2024}, month={May} }
 @article{yamamoto_huang_carbone_anholt_mackay_2024, title={The genetic basis of incipient sexual isolation in <i>Drosophila melanogaster</i>}, volume={291}, ISSN={["1471-2954"]}, DOI={10.1098/rspb.2024.0672}, abstractNote={Speciation is a fundamental evolutionary process but the genetic changes accompanying speciation are difficult to determine since true species do not produce viable and fertile offspring. Partially reproductively isolated incipient species are useful for assessing genetic changes that occur prior to speciation.}, number={2027}, journal={PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES}, author={Yamamoto, Akihiko and Huang, Wen and Carbone, Mary Anna and Anholt, Robert R. H. and Mackay, Trudy F. C.}, year={2024}, month={Jul} }
 @article{yadav_butler_yamamoto_patil_lloyd_scott_2023, title={CRISPR/Cas9-based split homing gene drive targeting
            <i>doublesex
            for population suppression of the global fruit pest
            <i>Drosophila suzukii}, volume={120}, ISSN={0027-8424 1091-6490}, url={http://dx.doi.org/10.1073/pnas.2301525120}, DOI={10.1073/pnas.2301525120}, abstractNote={
            Genetic-based methods offer environmentally friendly species-specific approaches for control of insect pests. One method, CRISPR homing gene drive that target genes essential for development, could provide very efficient and cost-effective control. While significant progress has been made in developing homing gene drives for mosquito disease vectors, little progress has been made with agricultural insect pests. Here, we report the development and evaluation of split homing drives that target the
            doublesex
            (
            dsx
            ) gene in
            Drosophila suzukii
            , an invasive pest of soft-skinned fruits. The drive component, consisting of
            dsx
            single guide RNA and DsRed genes, was introduced into the female-specific exon of
            dsx
            , which is essential for function in females but not males. However, in most strains, hemizygous females were sterile and produced the male
            dsx
            transcript. With a modified homing drive that included an optimal splice acceptor site, hemizygous females from each of the four independent lines were fertile. High transmission rates of the DsRed gene (94 to 99%) were observed with a line that expressed Cas9 with two nuclear localization sequences from the
            D. suzukii nanos
            promoter. Mutant alleles of
            dsx
            with small in-frame deletions near the Cas9 cut site were not functional and thus would not provide resistance to drive. Finally, mathematical modeling showed that the strains could be used for suppression of lab cage populations of
            D. suzukii
            with repeated releases at relatively low release ratios (1:4). Our results indicate that the split CRISPR homing gene drive strains could potentially provide an effective means for control of
            D. suzukii
            populations.
          }, number={25}, journal={Proceedings of the National Academy of Sciences}, publisher={Proceedings of the National Academy of Sciences}, author={Yadav, Amarish K. and Butler, Cole and Yamamoto, Akihiko and Patil, Anandrao A. and Lloyd, Alun L. and Scott, Maxwell J.}, year={2023}, month={Jun} }
 @article{yadav_asokan_yamamoto_patil_scott_2023, title={Expansion of the genetic toolbox for manipulation of the global crop pest <scp><i>Drosophila suzukii</i></scp>: Isolation and assessment of eye colour mutant strains}, volume={10}, ISSN={0962-1075 1365-2583}, url={http://dx.doi.org/10.1111/imb.12879}, DOI={10.1111/imb.12879}, abstractNote={AbstractDrosophila suzukii (Matsumura) (Diptera: Drosophilidae), commonly called spotted wing Drosophila, is an important agricultural pest recognised worldwide. D. suzukii is a pest of soft‐skinned fruits as females can lay eggs in ripening fruit before harvest. While strains for genetic biocontrol of D. suzukii have been made, the development of transgenic D. suzukii strains and their further screening remain a challenge partly due to the lack of phenotypically trackable genetic‐markers, such as those widely used with the model genetic organism D. melanogaster. Here, we have used CRISPR/Cas9 to introduce heritable mutations in the eye colour genes white, cinnabar and sepia, which are located on the X, second and third chromosomes, respectively. Strains were obtained, which were homozygous for a single mutation. Genotyping of the established strains showed insertion and/or deletions (indels) at the targeted sites. A strain homozygous for mutations in cinnabar and sepia showed a pale‐yellow eye colour at eclosion but darkened to a sepia colour after a week. The fecundity and fertility of some of the cinnabar and sepia strains were comparable with the wild type. Although white mutant males were previously reported to be sterile, we found that sterility is not fully penetrant and we have been able to maintain white‐eyed strains for over a year. The cinnabar, sepia and white mutant strains developed in this study should facilitate future genetic studies in D. suzukii and the development of strains for genetic control of this pest.}, journal={Insect Molecular Biology}, publisher={Wiley}, author={Yadav, Amarish K. and Asokan, Ramasamy and Yamamoto, Akihiko and Patil, Anandrao A. and Scott, Maxwell J.}, year={2023}, month={Oct} }
 @article{lyman_lyman_yamamoto_huang_harbison_zhou_anholt_mackay_2023, title={Natural genetic variation in a dopamine receptor is associated with variation in female fertility in Drosophila melanogaster}, volume={290}, ISSN={["1471-2954"]}, DOI={10.1098/rspb.2023.0375}, abstractNote={
            Fertility is a major component of fitness but its genetic architecture remains poorly understood. Using a full diallel cross of 50
            Drosophila
            Genetic Reference Panel inbred lines with whole genome sequences, we found substantial genetic variation in fertility largely attributable to females. We mapped genes associated with variation in female fertility by genome-wide association analysis of common variants in the fly genome. Validation of candidate genes by RNAi knockdown confirmed the role of the dopamine 2-like receptor (
            Dop2R
            ) in promoting egg laying. We replicated the
            Dop2R
            effect in an independently collected productivity dataset and showed that the effect of the
            Dop2R
            variant was mediated in part by regulatory gene expression variation. This study demonstrates the strong potential of genome-wide association analysis in this diverse panel of inbred strains and subsequent functional analyses for understanding the genetic architecture of fitness traits.
          }, number={1996}, journal={PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES}, author={Lyman, Richard F. and Lyman, Rachel A. and Yamamoto, Akihiko and Huang, Wen and Harbison, Susan T. and Zhou, Shanshan and Anholt, Robert R. H. and Mackay, Trudy F. C.}, year={2023}, month={Apr} }
 @article{yamamoto_yadav_scott_2022, title={Evaluation of Additional Drosophila suzukii Male-Only Strains Generated Through Remobilization of an FL19 Transgene}, volume={10}, ISSN={["2296-4185"]}, url={https://europepmc.org/articles/PMC8965018}, DOI={10.3389/fbioe.2022.829620}, abstractNote={Drosophila suzukii (D. suzukii) (Matsumura, 1931; Diptera: Drosophilidae), also known as spotted wing Drosophila, is a worldwide pest of fruits with soft skins such as blueberries and cherries. Originally from Asia, D. suzukii is now present in the Americas and Europe and has become a significant economic pest. Growers largely rely on insecticides for the control of D. suzukii. Genetic strategies offer a species-specific environmentally friendly way for suppression of D. suzukii populations. We previously developed a transgenic strain of D. suzukii that produced only males on a diet that did not contain tetracycline. The strain carried a single copy of the FL19 construct on chromosome 3. Repeated releases of an excess of FL19 males led to suppression of D. suzukii populations in laboratory cage trials. Females died as a consequence of overexpression of the tetracycline transactivator (tTA) and tTA-activated expression of the head involution defective proapoptotic gene. The aim of this study was to generate additional male-only strains that carried two copies of the FL19 transgene through crossing the original line with a piggyBac jumpstarter strain. Males that carried either two chromosome 3 or a singleX-linked transgene were identified through stronger expression of the red fluorescent protein marker gene. The brighter fluorescence of the X-linked lines was likely due to dosage compensation of the red fluorescent protein gene. In total, four X-linked lines and eleven lines with two copies on chromosome 3 were obtained, of which five were further examined. All but one of the strains produced only males on a diet without tetracycline. When crossed with wild type virgin females, all of the five two copy autosomal strains examined produced only males. However, the single copy X-linked lines did not show dominant female lethality. Five of the autosomal lines were further evaluated for productivity (egg to adult) and male competition. Based on these results, the most promising lines have been selected for future population suppression experiments with strains from different geographical locations.}, journal={FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY}, author={Yamamoto, Akihiko and Yadav, Amarish K. and Scott, Maxwell J.}, year={2022}, month={Mar} }
 @article{li_yamamoto_belikoff_berger_griffith_scott_2021, title={A conditional female lethal system for genetic suppression of the global fruit crop pest <scp><i>Drosophila suzukii}, volume={77}, ISSN={1526-498X 1526-4998}, url={http://dx.doi.org/10.1002/ps.6530}, DOI={10.1002/ps.6530}, abstractNote={AbstractBACKGROUNDDrosophila suzukii (Matsumura, 1931, Diptera: Drosophilidae) is a global pest of soft‐skinned fruits such as blueberries, cherries and raspberries. Also known as spotted‐wing drosophila, D. suzukii is native to Asia but is now widely distributed in the Americas and Europe, and presents a serious challenge for growers. Genetic control strategies offer an environmentally friendly approach for the control of D. suzukii.RESULTSIn this study, we developed transgenic strains of D. suzukii that carry dominant conditional female lethal transgenes. When raised in the absence of tetracycline, female D. suzukii die. We show that repeated releases of an excess of transgenic males can suppress D. suzukii populations in laboratory cage trials.CONCLUSIONOur data suggest that the transgenic strain could provide an effective approach for control of this invasive pest of soft‐skinned fruits.}, number={11}, journal={Pest Management Science}, publisher={Wiley}, author={Li, Fang and Yamamoto, Akihiko and Belikoff, Esther J and Berger, Amy and Griffith, Emily H and Scott, Maxwell J}, year={2021}, month={Jul}, pages={4915–4922} }
 @article{yanagawa_huang_yamamoto_wada-katsumata_schal_mackay_2020, title={Genetic Basis of Natural Variation in Spontaneous Grooming in Drosophila melanogaster}, volume={10}, ISSN={["2160-1836"]}, url={http://www.scopus.com/inward/record.url?eid=2-s2.0-85090276700&partnerID=MN8TOARS}, DOI={10.1534/g3.120.401360}, abstractNote={AbstractSpontaneous grooming behavior is a component of insect fitness. We quantified spontaneous grooming behavior in 201 sequenced lines of the Drosophila melanogaster Genetic Reference Panel and observed significant genetic variation in spontaneous grooming, with broad-sense heritabilities of 0.25 and 0.24 in females and males, respectively. Although grooming behavior is highly correlated between males and females, we observed significant sex by genotype interactions, indicating that the genetic basis of spontaneous grooming is partially distinct in the two sexes. We performed genome-wide association analyses of grooming behavior, and mapped 107 molecular polymorphisms associated with spontaneous grooming behavior, of which 73 were in or near 70 genes and 34 were over 1 kilobase from the nearest gene. The candidate genes were associated with a wide variety of gene ontology terms, and several of the candidate genes were significantly enriched in a genetic interaction network. We performed functional assessments of 29 candidate genes using RNA interference, and found that 11 affected spontaneous grooming behavior. The genes associated with natural variation in Drosophila grooming are involved with glutamate metabolism (Gdh) and transport (Eaat); interact genetically with (CCKLR-17D1) or are in the same gene family as (PGRP-LA) genes previously implicated in grooming behavior; are involved in the development of the nervous system and other tissues; or regulate the Notch and Epidermal growth factor receptor signaling pathways. Several DGRP lines exhibited extreme grooming behavior. Excessive grooming behavior can serve as a model for repetitive behaviors diagnostic of several human neuropsychiatric diseases.}, number={9}, journal={G3-GENES GENOMES GENETICS}, author={Yanagawa, Aya and Huang, Wen and Yamamoto, Akihiko and Wada-Katsumata, Ayako and Schal, Coby and Mackay, Trudy F. C.}, year={2020}, month={Sep}, pages={3453–3460} }
 @article{tallo_duncan_yamamoto_slaydon_arya_turlapati_mackay_carbone_2021, title={Heat shock proteins and small nucleolar RNAs are dysregulated in a Drosophila model for feline hypertrophic cardiomyopathy}, volume={11}, ISSN={["2160-1836"]}, DOI={10.1093/g3journal/jkaa014}, abstractNote={Abstract
               In cats, mutations in myosin binding protein C (encoded by the MYBPC3 gene) have been associated with hypertrophic cardiomyopathy (HCM). However, the molecular mechanisms linking these mutations to HCM remain unknown. Here, we establish Drosophila melanogaster as a model to understand this connection by generating flies harboring MYBPC3 missense mutations (A31P and R820W) associated with feline HCM. The A31P and R820W flies displayed cardiovascular defects in their heart rates and exercise endurance. We used RNA-seq to determine which processes are misregulated in the presence of mutant MYBPC3 alleles. Transcriptome analysis revealed significant downregulation of genes encoding small nucleolar RNA (snoRNAs) in exercised female flies harboring the mutant alleles compared to flies that harbor the wild-type allele. Other processes that were affected included the unfolded protein response and immune/defense responses. These data show that mutant MYBPC3 proteins have widespread effects on the transcriptome of co-regulated genes. Transcriptionally differentially expressed genes are also candidate genes for future evaluation as genetic modifiers of HCM as well as candidate genes for genotype by exercise environment interaction effects on the manifestation of HCM; in cats as well as humans.}, number={1}, journal={G3-GENES GENOMES GENETICS}, author={Tallo, Christian A. and Duncan, Laura H. and Yamamoto, Akihiko H. and Slaydon, Joshua D. and Arya, Gunjan H. and Turlapati, Lavanya and Mackay, Trudy F. C. and Carbone, Mary A.}, year={2021}, month={Jan} }
 @article{huang_massouras_inoue_peiffer_ramia_tarone_turlapati_zichner_zhu_lyman_et al._2014, title={Natural variation in genome architecture among 205 Drosophila melanogaster Genetic Reference Panel lines}, volume={24}, number={7}, journal={Genome Research}, author={Huang, W. and Massouras, A. and Inoue, Y. and Peiffer, J. and Ramia, M. and Tarone, A. M. and Turlapati, L. and Zichner, T. and Zhu, D. H. and Lyman, R. F. and et al.}, year={2014}, pages={1193–1208} }
 @article{sandukas_yamamoto_rabiei_2011, title={Osteoblast adhesion to functionally graded hydroxyapatite coatings doped with silver}, volume={97A}, ISSN={["1552-4965"]}, DOI={10.1002/jbm.a.33081}, abstractNote={AbstractSilver‐doped functionally graded hydroxyapatite (Ag‐FGHA) coatings have been prepared on glass and titanium substrates by ion beam assisted deposition (IBAD) method with in situ heat treatment, and the biological response and dissolution properties of the coatings have been examined. Three Ag‐FGHA coatings with different percentages of silver (1, 3, and 6.6 wt % Ag) were compared with pure FGHA (without Ag) as a control. MC 3T3‐E1 murine osteoblast cells were cultured on FGHA and Ag‐FGHA coating surfaces, and the number of adhered cells after 1, 4, and 7 days was counted. Micromanipulation of live single cells was performed to quantitatively compare cell affinity among the four coating compositions. Results showed that FGHA‐Ag1 coating (with 1 wt % Ag) had the highest number of adhered cells after each incubation period, as well as the highest cell affinity after 24‐h incubation. Surface profilometry was performed to determine surface roughness average (Ra) of coating surfaces before and after immersion in high‐purity water, showing that all surfaces initially had roughness averages below 200 nm, while after immersion, roughness average of FGHA‐Ag1 surface was significantly increased (Ra = 404 +/− 100.8 nm), attributed to the highest rate of dissolution. Release rate of Ag+ ions in solution was measured, showing release rates of silver ions for all Ag‐doped coatings were initially high and then gradually decreased to a minimum over time, which is the expected dissolution of functionally graded coatings. It is concluded that FGHA‐Ag1 coating promoted the highest degree of osteoblast adhesion because of optimal dissolution rate and nontoxic Ag percentage. © 2011 Wiley Periodicals, Inc. J Biomed Mater Res Part A:, 2011.}, number={4}, journal={JOURNAL OF BIOMEDICAL MATERIALS RESEARCH PART A}, author={Sandukas, Stefan and Yamamoto, Akiko and Rabiei, Afsaneh}, year={2011}, month={Jun}, pages={490–497} }
 @article{carbone_yamamoto_huang_lyman_meadors_yamamoto_anholt_mackay, title={Genetic architecture of natural variation in visual senescence in Drosophila}, volume={113}, number={43}, journal={Proceedings of the National Academy of Sciences of the United States of America}, author={Carbone, M. A. and Yamamoto, A. and Huang, W. and Lyman, R. A. and Meadors, T. B. and Yamamoto, R. and Anholt, R. R. H. and Mackay, T. F. C.}, pages={E6620–6629} }
 @article{magwire_yamamoto_carbone_roshina_symonenko_pasyukova_morozova_mackay, title={Quantitative and molecular genetic analyses of mutations increasing Drosophila life span}, volume={6}, number={7}, journal={PLoS Genetics}, author={Magwire, M. M. and Yamamoto, A. and Carbone, M. A. and Roshina, N. V. and Symonenko, A. V. and Pasyukova, E. G. and Morozova, T. V. and Mackay, T. F. C.} }
 @article{mackay_richards_stone_barbadilla_ayroles_zhu_casillas_han_magwire_cridland_et al., title={The Drosophila melanogaster genetic reference panel}, volume={482}, number={7384}, journal={Nature}, author={Mackay, T. F. C. and Richards, S. and Stone, E. A. and Barbadilla, A. and Ayroles, J. F. and Zhu, D. H. and Casillas, S. and Han, Y. and Magwire, M. M. and Cridland, J. M. and et al.}, pages={173–178} }
 @article{zhou_morozova_hussain_luoma_mccoy_yamamoto_mackay_anholt, title={The genetic basis for variation in sensitivity to lead toxicity in Drosophila melanogaster}, volume={124}, number={7}, journal={Environmental Health Perspectives}, author={Zhou, S. S. and Morozova, T. V. and Hussain, Y. N. and Luoma, S. E. and McCoy, L. and Yamamoto, A. and Mackay, T. F. C. and Anholt, R. R. H.}, pages={1062–1070} }