Iman Famili

Chinese hamster ovary (CHO) cells are the preferred production host for many therapeutic proteins. Here we report a 2.4-Gb draft genome sequence of a female Chinese hamster, Cricetulus griseus. We also resequenced and analyzed the genomes of six CHO cell lines from the CHO-K1, DG44 and CHO-S lineages. This analysis identified mutations and hamster genes missing in different CHO cell lines. Many mutations are located in genes with functions relevant to bioprocessing, such as apoptosis. The… Show more

Chinese hamster ovary (CHO) cells are the preferred production host for many therapeutic proteins. Here we report a 2.4-Gb draft genome sequence of a female Chinese hamster, Cricetulus griseus. We also resequenced and analyzed the genomes of six CHO cell lines from the CHO-K1, DG44 and CHO-S lineages. This analysis identified mutations and hamster genes missing in different CHO cell lines. Many mutations are located in genes with functions relevant to bioprocessing, such as apoptosis. The details of this genetic diversity highlight the value of the hamster genome as the reference upon which CHO cells can be studied and engineered for protein production. Show less

The multi-tissue type modeling approach presented herein provided a platform to study integrated metabolic states which had not been achieved prior.

Our information about the gene content of organisms continues to grow as more genomes are sequenced and gene products are characterized. Sequence-based annotation efforts have led to a list of cellular components, which can be thought of as a one-dimensional annotation. With growing information about component interactions, facilitated by the advancement of various high-throughput technologies, systemic, or two-dimensional, annotations can be generated. Knowledge about the physical arrangement… Show more

Our information about the gene content of organisms continues to grow as more genomes are sequenced and gene products are characterized. Sequence-based annotation efforts have led to a list of cellular components, which can be thought of as a one-dimensional annotation. With growing information about component interactions, facilitated by the advancement of various high-throughput technologies, systemic, or two-dimensional, annotations can be generated. Knowledge about the physical arrangement of chromosomes will lead to a three-dimensional spatial annotation of the genome and a fourth dimension of annotation will arise from the study of changes in genome sequences that occur during adaptive evolution. Here we discuss all four levels of genome annotation, with specific emphasis on two-dimensional annotation methods. Show less