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RAD sequencing sheds new light on the genetic structure and local adaptation of European scallops and resolves their demographic histories.

Vendrami DLJ, De Noia M, Telesca L, Handal W, Charrier G, Boudry P, Eberhart-Phillips L, Hoffman JI.

Sci Rep. 2019 May 15;9(1):7455. doi: 10.1038/s41598-019-43939-4.


Transcriptome assembly for a colour-polymorphic grasshopper (Gomphocerus sibiricus) with a very large genome size.

Shah A, Hoffman JI, Schielzeth H.

BMC Genomics. 2019 May 14;20(1):370. doi: 10.1186/s12864-019-5756-4.


Fur seal microbiota are shaped by the social and physical environment, show mother-offspring similarities and are associated with host genetic quality.

Grosser S, Sauer J, Paijmans AJ, Caspers BA, Forcada J, Wolf JBW, Hoffman JI.

Mol Ecol. 2019 May;28(9):2406-2422. doi: 10.1111/mec.15070. Epub 2019 Apr 29.


Detailed insights into pan-European population structure and inbreeding in wild and hatchery Pacific oysters (Crassostrea gigas) revealed by genome-wide SNP data.

Vendrami DLJ, Houston RD, Gharbi K, Telesca L, Gutierrez AP, Gurney-Smith H, Hasegawa N, Boudry P, Hoffman JI.

Evol Appl. 2018 Dec 31;12(3):519-534. doi: 10.1111/eva.12736. eCollection 2019 Mar.


Experimental validation of in silico predicted RAD locus frequencies using genomic resources and short read data from a model marine mammal.

Vendrami DLJ, Forcada J, Hoffman JI.

BMC Genomics. 2019 Jan 22;20(1):72. doi: 10.1186/s12864-019-5440-8.


A global cline in a colour polymorphism suggests a limited contribution of gene flow towards the recovery of a heavily exploited marine mammal.

Hoffman JI, Bauer E, Paijmans AJ, Humble E, Beckmann LM, Kubetschek C, Christaller F, Kröcker N, Fuchs B, Moreras A, Shihlomule YD, Bester MN, Cleary AC, De Bruyn PJN, Forcada J, Goebel ME, Goldsworthy SD, Guinet C, Hoelzel AR, Lydersen C, Kovacs KM, Lowther A.

R Soc Open Sci. 2018 Oct 17;5(10):181227. doi: 10.1098/rsos.181227. eCollection 2018 Oct.


A Brief History of Studies of Ventricular Twisting: A Tribute to Dr Gerald Buckberg.

Hoffman JIE.

Ann Thorac Surg. 2019 Apr;107(4):1291-1292. doi: 10.1016/j.athoracsur.2018.09.073. Epub 2018 Nov 22. No abstract available.


Demographic histories and genetic diversity across pinnipeds are shaped by human exploitation, ecology and life-history.

Stoffel MA, Humble E, Paijmans AJ, Acevedo-Whitehouse K, Chilvers BL, Dickerson B, Galimberti F, Gemmell NJ, Goldsworthy SD, Nichols HJ, Krüger O, Negro S, Osborne A, Pastor T, Robertson BC, Sanvito S, Schultz JK, Shafer ABA, Wolf JBW, Hoffman JI.

Nat Commun. 2018 Nov 16;9(1):4836. doi: 10.1038/s41467-018-06695-z.


Age- and quality-dependent DNA methylation correlate with melanin-based coloration in a wild bird.

Soulsbury CD, Lipponen A, Wood K, Mein CA, Hoffman JI, Lebigre C.

Ecol Evol. 2018 May 30;8(13):6547-6557. doi: 10.1002/ece3.4132. eCollection 2018 Jul.


RAD Sequencing and a Hybrid Antarctic Fur Seal Genome Assembly Reveal Rapidly Decaying Linkage Disequilibrium, Global Population Structure and Evidence for Inbreeding.

Humble E, Dasmahapatra KK, Martinez-Barrio A, Gregório I, Forcada J, Polikeit AC, Goldsworthy SD, Goebel ME, Kalinowski J, Wolf JBW, Hoffman JI.

G3 (Bethesda). 2018 Jul 31;8(8):2709-2722. doi: 10.1534/g3.118.200171.


Genotyping by sequencing reveals contrasting patterns of population structure, ecologically mediated divergence, and long-distance dispersal in North American palms.

Klimova A, Ortega-Rubio A, Vendrami DLJ, Hoffman JI.

Ecol Evol. 2018 May 8;8(11):5873-5890. doi: 10.1002/ece3.4125. eCollection 2018 Jun.


GCalignR: An R package for aligning gas-chromatography data for ecological and evolutionary studies.

Ottensmann M, Stoffel MA, Nichols HJ, Hoffman JI.

PLoS One. 2018 Jun 7;13(6):e0198311. doi: 10.1371/journal.pone.0198311. eCollection 2018.


Demographic causes of adult sex ratio variation and their consequences for parental cooperation.

Eberhart-Phillips LJ, Küpper C, Carmona-Isunza MC, Vincze O, Zefania S, Cruz-López M, Kosztolányi A, Miller TEX, Barta Z, Cuthill IC, Burke T, Székely T, Hoffman JI, Krüger O.

Nat Commun. 2018 Apr 25;9(1):1651. doi: 10.1038/s41467-018-03833-5.


A Preliminary Study of Left Ventricular Rotational Mechanics in Children with Noncompaction Cardiomyopathy: Do They Influence Ventricular Function?

Nawaytou HM, Montero AE, Yubbu P, Calderón-Anyosa RJC, Sato T, O'Connor MJ, Miller KD, Ursell PC, Hoffman JIE, Banerjee A.

J Am Soc Echocardiogr. 2018 Aug;31(8):951-961. doi: 10.1016/j.echo.2018.02.015. Epub 2018 Apr 13.


A high-quality pedigree and genetic markers both reveal inbreeding depression for quality but not survival in a cooperative mammal.

Wells DA, Cant MA, Nichols HJ, Hoffman JI.

Mol Ecol. 2018 May;27(9):2271-2288. doi: 10.1111/mec.14570. Epub 2018 Apr 29.


The Ratio Fallacy, with Special Reference to the Cardiac Index.

Hoffman JIE.

Pediatr Cardiol. 2018 Apr;39(4):805-809. doi: 10.1007/s00246-018-1823-x. Epub 2018 Feb 1.


The challenge in diagnosing coarctation of the aorta.

Hoffman JI.

Cardiovasc J Afr. 2018 Jul/Aug 23;29(4):252-255. doi: 10.5830/CVJA-2017-053. Epub 2017 Dec 11. Review.


The influence of inherited plumage colour morph on morphometric traits and breeding investment in zebra finches (Taeniopygia guttata).

Krause ET, Krüger O, Hoffman JI.

PLoS One. 2017 Nov 30;12(11):e0188582. doi: 10.1371/journal.pone.0188582. eCollection 2017.


Who is too fat?

Hoffman JI.

Cardiovasc J Afr. 2017 Sep/Oct;28(5):279. No abstract available.


Will the real ventricular architecture please stand up?

Hoffman JIE.

Physiol Rep. 2017 Sep;5(18). pii: e13404. doi: 10.14814/phy2.13404. Review.


Are there two different myocardial echogenic lines?

Hoffman JIE.

Echocardiography. 2017 Sep;34(9):1270-1271. doi: 10.1111/echo.13653. Review. No abstract available.


Molecular genetic analysis of two native desert palm genera, Washingtonia and Brahea, from the Baja California Peninsula and Guadalupe Island.

Klimova A, Hoffman JI, Gutierrez-Rivera JN, Leon de la Luz J, Ortega-Rubio A.

Ecol Evol. 2017 May 30;7(13):4919-4935. doi: 10.1002/ece3.3036. eCollection 2017 Jul.


Sex-specific early survival drives adult sex ratio bias in snowy plovers and impacts mating system and population growth.

Eberhart-Phillips LJ, Küpper C, Miller TEX, Cruz-López M, Maher KH, Dos Remedios N, Stoffel MA, Hoffman JI, Krüger O, Székely T.

Proc Natl Acad Sci U S A. 2017 Jul 3;114(27):E5474-E5481. doi: 10.1073/pnas.1620043114. Epub 2017 Jun 20.


Extremely low Plasmodium prevalence in wild plovers and coursers from Cape Verde and Madagascar.

Martínez-de la Puente J, Eberhart-Phillips LJ, Cristina Carmona-Isunza M, Zefania S, Navarro MJ, Kruger O, Hoffman JI, Székely T, Figuerola J.

Malar J. 2017 Jun 8;16(1):243. doi: 10.1186/s12936-017-1892-y.


RAD sequencing resolves fine-scale population structure in a benthic invertebrate: implications for understanding phenotypic plasticity.

Vendrami DL, Telesca L, Weigand H, Weiss M, Fawcett K, Lehman K, Clark MS, Leese F, McMinn C, Moore H, Hoffman JI.

R Soc Open Sci. 2017 Feb 8;4(2):160548. doi: 10.1098/rsos.160548. eCollection 2017 Feb.


The history of the microsphere method for measuring blood flows with special reference to myocardial blood flow: a personal memoir.

Hoffman JI.

Am J Physiol Heart Circ Physiol. 2017 Apr 1;312(4):H705-H710. doi: 10.1152/ajpheart.00834.2016. Epub 2017 Jan 27.


At what age should tetralogy of Fallot be corrected?

Hoffman JIE.

Cardiol Young. 2017 May;27(4):625-629. doi: 10.1017/S104795111600264X. Epub 2017 Jan 12. Review.


EB Ford revisited: assessing the long-term stability of wing-spot patterns and population genetic structure of the meadow brown butterfly on the Isles of Scilly.

Baxter SW, Hoffman JI, Tregenza T, Wedell N, Hosken DJ.

Heredity (Edinb). 2017 Apr;118(4):322-329. doi: 10.1038/hdy.2016.94. Epub 2016 Nov 2.


The helical ventricular myocardial band-or what's in a name?

Hoffman JI.

Echocardiography. 2016 Oct;33(10):1448-1449. doi: 10.1111/echo.13332. No abstract available.


Shift of grey seal subspecies boundaries in response to climate, culling and conservation.

Fietz K, Galatius A, Teilmann J, Dietz R, Frie AK, Klimova A, Palsbøll PJ, Jensen LF, Graves JA, Hoffman JI, Olsen MT.

Mol Ecol. 2016 Sep;25(17):4097-112. doi: 10.1111/mec.13748.


Long-term effective population size dynamics of an intensively monitored vertebrate population.

Mueller AK, Chakarov N, Krüger O, Hoffman JI.

Heredity (Edinb). 2016 Oct;117(4):290-9. doi: 10.1038/hdy.2016.67. Epub 2016 Aug 24.


High-throughput sequencing and graph-based cluster analysis facilitate microsatellite development from a highly complex genome.

Shah AB, Schielzeth H, Albersmeier A, Kalinowski J, Hoffman JI.

Ecol Evol. 2016 Jul 22;6(16):5718-27. doi: 10.1002/ece3.2305. eCollection 2016 Aug.


Born blonde: a recessive loss-of-function mutation in the melanocortin 1 receptor is associated with cream coat coloration in Antarctic fur seals.

Peters L, Humble E, Kröcker N, Fuchs B, Forcada J, Hoffman JI.

Ecol Evol. 2016 Jul 22;6(16):5705-17. doi: 10.1002/ece3.2290. eCollection 2016 Aug.


Population structure and historical demography of South American sea lions provide insights into the catastrophic decline of a marine mammal population.

Hoffman JI, Kowalski GJ, Klimova A, Eberhart-Phillips LJ, Staniland IJ, Baylis AM.

R Soc Open Sci. 2016 Jul 27;3(7):160291. doi: 10.1098/rsos.160291. eCollection 2016 Jul.


Reproducibility: Archive computer code with raw data.

Hoffman JI.

Nature. 2016 Jun 16;534(7607):326. doi: 10.1038/534326d. No abstract available.


Pup Vibrissae Stable Isotopes Reveal Geographic Differences in Adult Female Southern Sea Lion Habitat Use during Gestation.

Baylis AM, Kowalski GJ, Voigt CC, Orben RA, Trillmich F, Staniland IJ, Hoffman JI.

PLoS One. 2016 Jun 15;11(6):e0157394. doi: 10.1371/journal.pone.0157394. eCollection 2016.


Is spontaneous closure of a patent arterial duct common?

Hoffman JI.

Cardiol Young. 2017 Jan;27(1):55-58. doi: 10.1017/S1047951116000081. Epub 2016 May 10. Review.


Is Pulse Oximetry Useful for Screening Neonates for Critical Congenital Heart Disease at High Altitudes?

Hoffman JI.

Pediatr Cardiol. 2016 Jun;37(5):812-7. doi: 10.1007/s00246-016-1371-1. Epub 2016 Apr 18. Review.


How Accurate Is the Pulse Oximeter, and Does It Matter.

Hoffman JI.

Neonatology. 2016;109(3):219-20. doi: 10.1159/000442814. Epub 2016 Jan 27. No abstract available.


Mining the transcriptomes of four commercially important shellfish species for single nucleotide polymorphisms within biomineralization genes.

Vendrami DL, Shah A, Telesca L, Hoffman JI.

Mar Genomics. 2016 Jun;27:17-23. doi: 10.1016/j.margen.2015.12.009. Epub 2016 Jan 21.


Offspring Hormones Reflect the Maternal Prenatal Social Environment: Potential for Foetal Programming?

Meise K, von Engelhardt N, Forcada J, Hoffman JI.

PLoS One. 2016 Jan 13;11(1):e0145352. doi: 10.1371/journal.pone.0145352. eCollection 2016.


A draft fur seal genome provides insights into factors affecting SNP validation and how to mitigate them.

Humble E, Martinez-Barrio A, Forcada J, Trathan PN, Thorne MA, Hoffmann M, Wolf JB, Hoffman JI.

Mol Ecol Resour. 2016 Jul;16(4):909-21. doi: 10.1111/1755-0998.12502. Epub 2016 Jan 20.


De novo assembly of the dual transcriptomes of a polymorphic raptor species and its malarial parasite.

Pauli M, Chakarov N, Rupp O, Kalinowski J, Goesmann A, Sorenson MD, Krüger O, Hoffman JI.

BMC Genomics. 2015 Dec 9;16:1038. doi: 10.1186/s12864-015-2254-1.


Variability among individuals is generated at the gene expression level.

Peck LS, Thorne MA, Hoffman JI, Morley SA, Clark MS.

Ecology. 2015 Jul;96(7):2004-14.


Chemical fingerprints encode mother-offspring similarity, colony membership, relatedness, and genetic quality in fur seals.

Stoffel MA, Caspers BA, Forcada J, Giannakara A, Baier M, Eberhart-Phillips L, Müller C, Hoffman JI.

Proc Natl Acad Sci U S A. 2015 Sep 8;112(36):E5005-12. doi: 10.1073/pnas.1506076112. Epub 2015 Aug 10.


Standard error or standard deviation?

Hoffman JI.

Pediatr Cardiol. 2015 Jun;36(5):1105-6. doi: 10.1007/s00246-015-1166-9. Epub 2015 Apr 2. No abstract available.


Contrasting genetic diversity and population structure among three sympatric Madagascan shorebirds: parallels with rarity, endemism, and dispersal.

Eberhart-Phillips LJ, Hoffman JI, Brede EG, Zefania S, Kamrad MJ, Székely T, Bruford MW.

Ecol Evol. 2015 Mar;5(5):997-1010. doi: 10.1002/ece3.1393. Epub 2015 Jan 23.


Apparent vector-mediated parent-to-offspring transmission in an avian malaria-like parasite.

Chakarov N, Linke B, Boerner M, Goesmann A, Krüger O, Hoffman JI.

Mol Ecol. 2015 Mar;24(6):1355-63. doi: 10.1111/mec.13115. Epub 2015 Mar 6.


Evidence for frequent incest in a cooperatively breeding mammal.

Nichols HJ, Cant MA, Hoffman JI, Sanderson JL.

Biol Lett. 2014 Dec;10(12):20140898. doi: 10.1098/rsbl.2014.0898.

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