MOESM1 of Predicting direct and indirect breeding values for survival time in laying hens using repeated measures

Additional file 1. Predicting phenotypes using STM, RMM.t, RMM.p, and GLMM. Detailed description on calculating predicted phenotypes using STM, RMM.t, RMM.p, and GLMM

MOESM2 of Trends in genome-wide and region-specific genetic diversity in the Dutch-Flemish Holstein–Friesian breeding program from 1986 to 2015

Additional file 2: Table S1. Number of QTL extracted from AnimalQTLdb per trait and trait category

MOESM1 of Trends in genome-wide and region-specific genetic diversity in the Dutch-Flemish Holstein–Friesian breeding program from 1986 to 2015

Additional file 1: Fig. S1. Number of SNPs per bin of 50 kb per Bos taurus autosome (BTA)

MOESM3 of Trends in genome-wide and region-specific genetic diversity in the Dutch-Flemish Holstein–Friesian breeding program from 1986 to 2015

Additional file 3: Fig. S2. Moving correlation (of 51 markers) between changes in allele frequency in the 1996–2000 and 2001–2005 periods

Use of order-specific primers to investigate the methanogenic diversity in acetate enrichment system

The applicability of order-specific primers in minimizing the possible underestimation of microbial diversity was evaluated via denaturing gradient gel electrophoresis (DGGE) analysis of a lab-scale anaerobic digester. Initially, a population analysis with real-time quantitative PCR demonstrated the existence of three methanogenic orders-Methanobacteriales, Methanomicrobiales, and Methanosarcinales-throughout the reaction period. DGGE analyses with three pairs of order-specific primers yielded eight operational taxonomic units (OTUs), whereas DGGE analysis with two independent Archaea-specific primers identified only five. Moreover, the order-specific primers amplified at least one OTU affiliated with each order, whereas no members of Methanobacteriales or Methanomicrobiales were identified with Archaea-specific primers in most samples. These findings provide evidence that order-specific analysis can detect the diversity of methanogens in greater detail than conventional Archaea-specific analysis.close121

Additional file 1: of Genomic prediction using imputed whole-genome sequence data in Holstein Friesian cattle

Conditional posterior densities BSSVS model. This file describes the conditional posterior densities for the BSSVS model. (PDF 82 kb

Additional file 3: Table S1. of Genomic prediction using imputed whole-genome sequence data in Holstein Friesian cattle

Correlations between predictions of the different models. Table S2. Estimates of genetic parameters for GBLUP model including polygenic component for somatic cell score. (PDF 45 kb