The phrase "as a reference genome" is correct and usable in written English.
It can be used in scientific or technical contexts, particularly in genetics or bioinformatics, to describe a genome that serves as a standard for comparison.
Example: "The researchers used the human genome as a reference genome to identify genetic variations in the study participants."
Alternatives: "as a standard genome" or "as a comparative genome".
The annotated Ks3 mtDNA genomic sequence was used as a reference genome and compared with mtDNA sequences from Km3 (Triticum aestivum cv. Yumai 3; EU534409), rice (AB076665, AB076666), maize NB (Zea mays ssp.
The coelacanth genome (as well as its phenotype) indeed seems more stable than any teleost genome, and it was proposed as a reference genome for the search for regulatory elements among gnathostomes using a comparative genomics approach [48].
In this sense, we can use rice as a reference genome for biofuel crops such as sugarcane and sorghum.
We used the Nipponbare physical map as a reference genome for gene survey, identification of processes, pathways and curation of the QTLs.
Nucleotide sequences of the mitochondrial genes in BA000029.3 need to be updated using the data in this study when used as a reference genome.
On the other hand, because we can map sorghum genes to their chromosomal positions, we can use rice as a reference genome to identify genes by their ancestry.
In the present study, the whole genome of five accessions was mapped to Nipponbare as a reference genome to discover genome-wide DNA polymorphisms.
Bentolila and Stefanov (2012) have reported complete sequences of indica cultivar IR6888 and WA-CMS mitochondrial genomes and presented a table of substitutions and insertions within rice mitochondrial genes relative to Nipponbare using BA000029.3 as a reference genome.
The selected genomic sequences (Table 3) were tiled on the chip using S. pneumoniae TIGR4 genome sequence as a reference genome as described in the Methods.
Fully sequenced and completely annotated S. pneumoniae TIGR4 sequence (GenBank Accession: AE005672) [43] was used as a reference genome to design a 30 Kb CustomSeq resequencing chip.
B. cenocepacia J2315 was used as a reference genome because unlike strain 383, it is completely finished and is the only genome from the B. cepacia complex to have undergone a detailed manual annotation.
