The putative source of 7-locus genotypes from clinical C. coli isolates (500) was assigned by comparison to datasets comprising genotype data from contemporaneous host and environmental/food isolates and genotype data from published sources [13], [17], [22], [26], [27], [28], [29].
We also compare the performance of AHE to the only other current source of multi-locus data for the Eugongylus group: exons mined from transcriptomes.
FR13A, the source of SUB1 locus showed slower leaf elongation and recovered faster than Sub1 lines, suggesting the possibility of further improvements in submergence tolerance by incorporating additional traits from FR13A or similar landraces.
Moreover, genotypes having no resistance alleles for specific Xa QTLs but exhibit high degree of resistance serve as new sources of resistance loci to plant breeders to diversify the genetic base of core breeding sets.
Rice has a wide range of genetic diversity and global germplasm collections, serving a rich source of novel resistance loci.
In both cases the major source of discordance was loci called heterozygous in the genome alignment but homozygous from the SNP chip.
In both cases the major source of discordance was loci called heterozygous in the WGS but homozygous from the chip data (Table 1).> SnpEff [ 53] assigned 18,176,092 functional classes to our SNPs based on annotation of the domestic sheep genome.
When present in low- or single-copy, nuclear markers are a highly valuable source of putative orthologous loci, that are increasingly being accessed in plant phylogenomics [ 7, 9, 10, 15, 19– 34].
The ability to accurately perform genetic assignment depends upon several factors including the level of genetic differentiation among the baseline (potential source) samples, the number of loci included in the analyses, in addition to sample sizes [34], [35], [38], [39].
Accordingly, there has been considerable attention on the use of the mt genome as the source of a barcode locus in animals.
