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. 2018 Nov 2;9(11):532.
doi: 10.3390/genes9110532.

Deep Multi-OMICs and Multi-Tissue Characterization in a Pre- and Postprandial State in Human Volunteers: The GEMM Family Study Research Design

Raul A Bastarrachea  1 , Hugo A Laviada-Molina  2 , Edna J Nava-Gonzalez  3 , Irene Leal-Berumen  4 , Claudia Escudero-Lourdes  5 , Fabiola Escalante-Araiza  6 , Vanessa-Giselle Peschard  7 , Rosa A Veloz-Garza  8 , Karin Haack  9 , Angélica Martínez-Hernández  10 , Francisco M Barajas-Olmos  11 , Fernanda Molina-Segui  12 , Fatima A Buenfil-Rello  13 , Lucia Gonzalez-Ramirez  14 , Reinhard Janssen-Aguilar  15 , Ricardo Lopez-Muñoz  16 , Fernanda Perez-Cetina  17 , Janeth F Gaytan-Saucedo  18 , Zoila Vaquera  19 , Judith Cornejo-Barrera  20 , Juan Carlos Castillo-Pineda  21 , Areli Murillo-Ramirez  22 , Sara P Diaz-Tena  23 , Benigno Figueroa-Nuñez  24 , Laura González-López  25 , Rocío A Salinas-Osornio  26 , Melesio E Valencia-Rendón  27 , José Ángeles-Chimal  28 , Jesús Santa-Olalla Tapia  29 , José M Remes-Troche  30 , Salvador B Valdovinos-Chavez  31 , Eira E Huerta-Avila  32 , Xianlin Han  33 , Lorena Orozco  34 , Ernesto Rodriguez-Ayala  35 , Susan Weintraub  36 , Esther C Gallegos-Cabrales  37 , Shelley A Cole  38 , Jack W Kent Jr  39
Affiliations

Deep Multi-OMICs and Multi-Tissue Characterization in a Pre- and Postprandial State in Human Volunteers: The GEMM Family Study Research Design

Raul A Bastarrachea et al. Genes (Basel). .

Abstract

Cardiovascular disease (CVD) and type 2 diabetes (T2D) are increasing worldwide. This is mainly due to an unhealthy nutrition, implying that variation in CVD risk may be due to variation in the capacity to manage a nutritional load. We examined the genomic basis of postprandial metabolism. Our main purpose was to introduce the GEMM Family Study (Genetics of Metabolic Diseases in Mexico) as a multi-center study carrying out an ongoing recruitment of healthy urban adults. Each participant received a mixed meal challenge and provided a 5-hours' time course series of blood, buffy coat specimens for DNA isolation, and adipose tissue (ADT)/skeletal muscle (SKM) biopsies at fasting and 3 h after the meal. A comprehensive profiling, including metabolomic signatures in blood and transcriptomic and proteomic profiling in SKM and ADT, was performed to describe tendencies for variation in postprandial response. Our data generation methods showed preliminary trends indicating that by characterizing the dynamic properties of biomarkers with metabolic activity and analyzing multi-OMICS data it could be possible, with this methodology and research design, to identify early trends for molecular biology systems and genes involved in the fasted and fed states.

Keywords: GEMM family study; mixed meal challenge; multi-OMICS; postprandial metabolism.

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Conflict of interest statement

The authors declare no conflict of interest. The funding sponsors had no role in the design of the study; in the collection, analyses, or interpretation of data; in the writing of the manuscript, and in the decision to publish the results.

Figures

Figure 1
Figure 1
Map of Mexico showing location of GEMM (Genetics of Metabolic Diseases in Mexico) Centers.
Figure 2
Figure 2
Three-generation family tree from Monterrey, Mexico as an example of the typical extended pedigrees recruited in the GEMM Study. Proband: MTY1001 (P002). Proband’s wife: MTY1002 (P004). Founders: MTY 10050&51 (deceased). Proband’s parents: MTY1002&03 (deceased). Brothers and sisters: MTY 1011, 10, 08, 13 (P0014), 09, 12, 14. Daughters: MTY1006 (P021) and 07 (P018). Son: MTY 1005 (P022). P00: Participants that have already volunteered for the postprandial/biopsy procedures. Female—circles; Male—squares.
Figure 3
Figure 3
Transcriptomic response to meal in nine GEMM subjects. 32 transcripts in muscle (nominal p < 0.05). 15 upregulated, 7 downregulated. Include PDK4 and TXNIP at p < 1 × 10−5. BMI: body mass index.
See this image and copyright information in PMC

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