UFGI Publication Round-up: Week of 2/12/24

UFGI Publication Round-up: Week of 2/12/24

Repeated upslope biome shifts in Saxifraga during late-Cenozoic climate cooling.

Carruthers T, Moerland MS, Ebersbach J, Favre A, Folk RA, Hawkins JA, Muellner-Riehl AN, Röser M, Soltis DE, Tkach N, Baker WJ, de Vos JM, Eiserhardt WL.

Nat Commun. 2024 Feb 6;15(1):1100. doi: 10.1038/s41467-024-45289-w.

PMID: 38321017

Population Analysis Identifies 15 Multi-Variant Dominant White Haplotypes in Horses.

McFadden A, Vierra M, Robilliard H, Martin K, Brooks SA, Everts RE, Lafayette C.

Animals (Basel). 2024 Feb 5;14(3):517. doi: 10.3390/ani14030517.

PMID: 38338160

Spotting the Pattern: A Review on White Coat Color in the Domestic Horse.

McFadden A, Vierra M, Martin K, Brooks SA, Everts RE, Lafayette C.

Animals (Basel). 2024 Jan 30;14(3):451. doi: 10.3390/ani14030451.

PMID: 38338094

Evaluating vector competence for Yellow fever in the Caribbean.

Gabiane G, Bohers C, Mousson L, Obadia T, Dinglasan RR, Vazeille M, Dauga C, Viglietta M, Yébakima A, Vega-Rúa A, Gutiérrez Bugallo G, Gélvez Ramírez RM, Sonor F, Etienne M, Duclovel-Pame N, Blateau A, Smith-Ravin J, De Lamballerie X, Failloux AB.

Nat Commun. 2024 Feb 9;15(1):1236. doi: 10.1038/s41467-024-45116-2.

PMID: 38336944

To and fro in the archipelago: Repeated inter-island dispersal and New Guinea’s orogeny affect diversification of Delias, the world’s largest butterfly genus.

Liang W, Nunes R, Leong JV, Carvalho APS, Müller CJ, Braby MF, Pequin O, Hoshizaki S, Morinaka S, Peggie D, Badon JAT, Mohagan AB, Beaver E, Hsu YF, Inayoshi Y, Monastyrskii A, Vlasanek P, Toussaint EFA, Benítez HA, Kawahara AY, Pierce NE, Lohman DJ.

Mol Phylogenet Evol. 2024 Feb 5:108022. doi: 10.1016/j.ympev.2024.108022. Online ahead of print.

PMID: 38325534

Long read genome assembly of Automeris io (Lepidoptera: Saturniidae) an emerging model for the evolution of deimatic displays.

Skojec C, Godfrey RK, Kawahara AY.

G3 (Bethesda). 2024 Feb 7:jkad292. doi: 10.1093/g3journal/jkad292. Online ahead of print.

PMID: 38324397

Nucleotide-level distance metrics to quantify alternative splicing implemented in TranD.

Nanni A, Titus-McQuillan J, Bankole KS, Pardo-Palacios F, Signor S, Vlaho S, Moskalenko O, Morse AM, Rogers RL, Conesa A, McIntyre LM.

Nucleic Acids Res. 2024 Feb 10:gkae056. doi: 10.1093/nar/gkae056. Online ahead of print.

PMID: 38340337

The single-cell transcriptome program of nodule development cellular lineages in Medicago truncatula.

Pereira WJ, Boyd J, Conde D, Triozzi PM, Balmant KM, Dervinis C, Schmidt HW, Boaventura-Novaes C, Chakraborty S, Knaack SA, Gao Y, Feltus FA, Roy S, Ané JM, Frugoli J, Kirst M.

Cell Rep. 2024 Feb 7;43(2):113747. doi: 10.1016/j.celrep.2024.113747. Online ahead of print.

PMID: 38329875

Expanded specific T cells to hypomutated regions of the SARS-CoV-2 using mRNA electroporated antigen-presenting cells.

Ogando-Rivas E, Castillo P, Yang C, Trivedi V, Zhang D, Pohl-Guimarães F, Liu R, Barpujari A, Candelario KM, Mendez-Gomez H, Sayour EJ, Mitchell DA.

Mol Ther Methods Clin Dev. 2024 Jan 22;32(1):101192. doi: 10.1016/j.omtm.2024.101192. eCollection 2024 Mar 14.

PMID: 38327807

Beyond blast: enabling microbiologists to better extract literature, taxonomic distributions and gene neighbourhood information for protein families.

Reed CJ, Denise R, Hourihan J, Babor J, Jaroch M, Martinelli M, Hutinet G, de Crécy-Lagard V.

Microb Genom. 2024 Feb;10(2). doi: 10.1099/mgen.0.001183.

PMID: 38323604

Open Access and Reproducibility in Plant Pathology Research: Guidelines and Best Practices.

Grünwald NJ, Bock C, Chang JH, de Souza AA, Del Ponte E, du Toit LJ, Dorrance AE, Dung JKS, Gent DH, Goss EM, Lowe-Power T, Madden LV, Martin FN, McDowell JM, Naegele R, Potnis N, Quesada-Ocampo L, Sundin GW, Thiessen L, Vinatzer B, Zeng Q.

Phytopathology. 2024 Feb 8. doi: 10.1094/PHYTO-12-23-0483-IA. Online ahead of print.

PMID: 38330057

Keeping Pathologists in the Loop and an Adaptive F1-Score Threshold Method for Mitosis Detection in Canine Perivascular Wall Tumours.

Rai T, Morisi A, Bacci B, Bacon NJ, Dark MJ, Aboellail T, Thomas SA, La Ragione RM, Wells K.

Cancers (Basel). 2024 Feb 2;16(3):644. doi: 10.3390/cancers16030644.

PMID: 38339394

Nivolumab monotherapy or combination with ipilimumab with or without cobimetinib in previously treated patients with pancreatic adenocarcinoma (CheckMate 032).

Callahan M, Amin A, Kaye FJ, Morse MA, Taylor MH, Peltola KJ, Sharma P, O’Reilly EM, Meadows Shropshire S, O’Brien S, Tschaika M, Le DT.

J Immunother Cancer. 2024 Feb 5;12(2):e007883. doi: 10.1136/jitc-2023-007883.

PMID: 38316517

Rare and common genetic determinants of mitochondrial function determine severity but not risk of amyotrophic lateral sclerosis.

Harvey C, Weinreich M, Lee JAK, Shaw AC, Ferraiuolo L, Mortiboys H, Zhang S, Hop PJ, Zwamborn RAJ, van Eijk K, Julian TH, Moll T, Iacoangeli A, Al Khleifat A, Quinn JP, Pfaff AL, Kõks S, Poulton J, Battle SL, Arking DE, Snyder MP; Project MinE ALS Sequencing Consortium; Veldink JH, Kenna KP, Shaw PJ, Cooper-Knock J.

Heliyon. 2024 Jan 24;10(3):e24975. doi: 10.1016/j.heliyon.2024.e24975. eCollection 2024 Feb 15.

PMID: 38317984

Signatures of cysteine oxidation on muscle structural and contractile proteins are associated with physical performance and muscle function in older adults: Study of Muscle, Mobility and Aging (SOMMA).

Day NJ, Kelly SS, Lui LY, Mansfield TA, Gaffrey MJ, Trejo JB, Sagendorf TJ, Attah IK, Moore RJ, Douglas CM, Newman AB, Kritchevsky SB, Kramer PA, Marcinek DJ, Coen PM, Goodpaster BH, Hepple RT, Cawthon PM, Petyuk VA, Esser KA, Qian WJ, Cummings SR.

Aging Cell. 2024 Feb 8:e14094. doi: 10.1111/acel.14094. Online ahead of print.

PMID: 38332629

Surface colonization by Flavobacterium johnsoniae promotes its survival in a model microbial community.

Magesh S, Hurley AI, Nepper JF, Chevrette MG, Schrope JH, Li C, Beebe DJ, Handelsman J.

mBio. 2024 Feb 8:e0342823. doi: 10.1128/mbio.03428-23. Online ahead of print.

PMID: 38329367

An artificial intelligence approach of feature engineering and ensemble methods depicts the rumen microbiome contribution to feed efficiency in dairy cows.

Monteiro HF, Figueiredo CC, Mion B, Santos JEP, Bisinotto RS, Peñagaricano F, Ribeiro ES, Marinho MN, Zimpel R, da Silva AC, Oyebade A, Lobo RR, Coelho WM Jr, Peixoto PMG, Ugarte Marin MB, Umaña-Sedó SG, Rojas TDG, Elvir-Hernandez M, Schenkel FS, Weimer BC, Brown CT, Kebreab E, Lima FS.

Anim Microbiome. 2024 Feb 6;6(1):5. doi: 10.1186/s42523-024-00289-5.

PMID: 38321581

Application of behavior data to predictive exploratory models of metritis self-cure and treatment failure in dairy cows.

Prim JG, Casaro S, Mirzaei A, Gonzalez TD, de Oliveira EB, Veronese A, Chebel RC, Santos JEP, Jeong KC, Lima FS, Menta PR, Machado VS, Galvão KN.

J Dairy Sci. 2024 Feb 2:S0022-0302(24)00052-3. doi: 10.3168/jds.2023-23611. Online ahead of print.

PMID: 38310966

PROTAC-mediated NR4A1 degradation as a novel strategy for cancer immunotherapy.

Wang L, Xiao Y, Luo Y, Master RP, Mo J, Kim MC, Liu Y, Maharjan CK, Patel UM, De U, Carelock ME, Tithi TI, Li X, Shaffer DR, Guertin KR, Zhuang H, Moser E, Smalley KSM, Lv D, Zhou D, Zheng G, Zhang W.

J Exp Med. 2024 Mar 4;221(3):e20231519. doi: 10.1084/jem.20231519. Epub 2024 Feb 9.

PMID: 38334978