Farming as a Business

This bulletin is a copy of an account book kept by a farmer in South Dakota covering his farm business in 1917-18. It also shows how he summarized it to find the strong and weak points of the business. The purpose of this bulletin is to show how a farm account book can be summarized with but a record of the sales, expenses and inventories. All figures used in the summaries are taken from the record of sales and expenses and the inventories

Canine Genomics and Genetics: Running with the Pack

The domestication of the dog from its wolf ancestors is perhaps the most complex genetic experiment in history, and certainly the most extensive. Beginning with the wolf, man has created dog breeds that are hunters or herders, big or small, lean or squat, and independent or loyal. Most breeds were established in the 1800s by dog fanciers, using a small number of founders that featured traits of particular interest. Popular sire effects, population bottlenecks, and strict breeding programs designed to expand populations with desirable traits led to the development of what are now closed breeding populations, with limited phenotypic and genetic heterogeneity, but which are ideal for genetic dissection of complex traits. In this review, we first discuss the advances in mapping and sequencing that accelerated the field in recent years. We then highlight findings of interest related to disease gene mapping and population structure. Finally, we summarize novel results on the genetics of morphologic variation

Genome-wide signatures of population bottlenecks and diversifying selection in European wolves

Genomic resources developed for domesticated species provide powerful tools for studying the evolutionary history of their wild relatives. Here we use 61K single-nucleotide polymorphisms (SNPs) evenly spaced throughout the canine nuclear genome to analyse evolutionary relationships among the three largest European populations of grey wolves in comparison with other populations worldwide, and investigate genome-wide effects of demographic bottlenecks and signatures of selection. European wolves have a discontinuous range, with large and connected populations in Eastern Europe and relatively smaller, isolated populations in Italy and the Iberian Peninsula. Our results suggest a continuous decline in wolf numbers in Europe since the Late Pleistocene, and long-term isolation and bottlenecks in the Italian and Iberian populations following their divergence from the Eastern European population. The Italian and Iberian populations have low genetic variability and high linkage disequilibrium, but relatively few autozygous segments across the genome. This last characteristic clearly distinguishes them from populations that underwent recent drastic demographic declines or founder events, and implies long-term bottlenecks in these two populations. Although genetic drift due to spatial isolation and bottlenecks seems to be a major evolutionary force diversifying the European populations, we detected 35 loci that are putatively under diversifying selection. Two of these loci flank the canine platelet-derived growth factor gene, which affects bone growth and may influence differences in body size between wolf populations. This study demonstrates the power of population genomics for identifying genetic signals of demographic bottlenecks and detecting signatures of directional selection in bottlenecked populations, despite their low background variability.Heredity advance online publication, 18 December 2013; doi:10.1038/hdy.2013.122

The Serendipitous Discovery of a Group or Cluster of young Galaxies at z=2.40 in Deep Hubble Space Telescope WFPC2 Images

We report the serendipitous discovery of a group or cluster of young galaxies at $z\simeq$2.40 in a 24-orbit HST/WFPC2 exposure of the field around the weak radio galaxy 53W002. Potential cluster members were identified on ground-based narrow-band redshifted Ly$\alpha$ images and confirmed via spectroscopy. In addition to the known weak radio galaxy 53W002 at z=2.390, two other objects were found to have excess narrow-band Ly$\alpha$ emission at $z\simeq$2.40. Both have been spectroscopically confirmed, and one clearly contains a weak AGN. They are located within one arcminute of 53W002, or $\sim0.23h_{100}^{-1}$Mpc ($q_o$=0.5) at $z\simeq$2.40, which is the physical scale of a group or small cluster of galaxies. Profile fitting of the WFPC2 images shows that the objects are very compact, with scale lengths $\simeq$0\farcs 1 ($\simeq0.39h_{100}^{-1}$kpc), and are rather faint (luminosities < L*), implying that they may be sub-galactic sized objects. We discuss these results in the context of galaxy and cluster evolution and the role that weak AGN may play in the formation of young galaxies.Comment: Accepted for publication in The Astrophysical Journal (Letters). 13 pages of gzip compressed and uuencoded PS. Figures are available at http://www.phys.unsw.edu.au/~spd/bib.htm

The Top Ten List of Gravitational Lens Candidates from the HST Medium Deep Survey

A total of 10 good candidates for gravitational lensing have been discovered in the WFPC2 images from the HST Medium Deep Survey (MDS) and archival primary observations. These candidate lenses are unique HST discoveries, i.e. they are faint systems with sub-arcsecond separations between the lensing objects and the lensed source images. Most of them are difficult objects for ground-based spectroscopic confirmation or for measurement of the lens and source redshifts. Seven are ``strong lens'' candidates which appear to have multiple images of the source. Three are cases where the single image of the source galaxy has been significantly distorted into an arc. The first two quadruply lensed candidates were reported in Ratnatunga et al 1995 (ApJL, 453, L5) We report on the subsequent eight candidates and describe them with simple models based on the assumption of singular isothermal potentials. Residuals from the simple models for some of the candidates indicate that a more complex model for the potential will probably be required to explain the full structural detail of the observations once they are confirmed to be lenses. We also discuss the effective survey area which was searched for these candidate lens objects.Comment: 26 pages including 12 figures and 10 tables. AJ Vol. 117, No.

The IGF1 small dog haplotype is derived from Middle Eastern gray wolves

Abstract Background A selective sweep containing the insulin-like growth factor 1 (IGF1) gene is associated with size variation in domestic dogs. Intron 2 of IGF1 contains a SINE element and single nucleotide polymorphism (SNP) found in all small dog breeds that is almost entirely absent from large breeds. In this study, we surveyed a large sample of grey wolf populations to better understand the ancestral pattern of variation at IGF1 with a particular focus on the distribution of the small dog haplotype and its relationship to the origin of the dog. Results We present DNA sequence data that confirms the absence of the derived small SNP allele in the intron 2 region of IGF1 in a large sample of grey wolves and further establishes the absence of a small dog associated SINE element in all wild canids and most large dog breeds. Grey wolf haplotypes from the Middle East have higher nucleotide diversity suggesting an origin there. Additionally, PCA and phylogenetic analyses suggests a closer kinship of the small domestic dog IGF1 haplotype with those from Middle Eastern grey wolves. Conclusions The absence of both the SINE element and SNP allele in grey wolves suggests that the mutation for small body size post-dates the domestication of dogs. However, because all small dogs possess these diagnostic mutations, the mutations likely arose early in the history of domestic dogs. Our results show that the small dog haplotype is closely related to those in Middle Eastern wolves and is consistent with an ancient origin of the small dog haplotype there. Thus, in concordance with past archeological studies, our molecular analysis is consistent with the early evolution of small size in dogs from the Middle East. See associated opinion by Driscoll and Macdonald: http://jbiol.com/content/9/2/1

Revisiting the missing protein-coding gene catalog of the domestic dog

<p>Abstract</p> <p>Background</p> <p>Among mammals for which there is a high sequence coverage, the whole genome assembly of the dog is unique in that it predicts a low number of protein-coding genes, ~19,000, compared to the over 20,000 reported for other mammalian species. Of particular interest are the more than 400 of genes annotated in primates and rodent genomes, but missing in dog.</p> <p>Results</p> <p>Using over 14,000 orthologous genes between human, chimpanzee, mouse rat and dog, we built multiple pairwise synteny maps to infer short orthologous intervals that were targeted for characterizing the canine missing genes. Based on gene prediction and a functionality test using the ratio of replacement to silent nucleotide substitution rates (<it>d</it>_N/<it>d</it>_S), we provide compelling structural and functional evidence for the identification of 232 new protein-coding genes in the canine genome and 69 gene losses, characterized as undetected gene or pseudogenes. Gene loss phyletic pattern analysis using ten species from chicken to human allowed us to characterize 28 canine-specific gene losses that have functional orthologs continuously from chicken or marsupials through human, and 10 genes that arose specifically in the evolutionary lineage leading to rodent and primates.</p> <p>Conclusion</p> <p>This study demonstrates the central role of comparative genomics for refining gene catalogs and exploring the evolutionary history of gene repertoires, particularly as applied for the characterization of species-specific gene gains and losses.</p