Draft Assembly of Elite Inbred Line PH207 Provides Insights into Genomic and Transcriptome Diversity in Maize.
Intense artificial selection over the last 100 years has produced elite maize (Zea mays) inbred lines that combine to produce high-yielding hybrids. To further our understanding of how genome and transcriptome variation contribute to the production of high-yielding hybrids, we generated a draft genome assembly of the inbred line PH207 to complement and compare with the existing B73 reference sequence. B73 is a founder of the Stiff Stalk germplasm pool, while PH207 is a founder of Iodent germplasm, both of which have contributed substantially to the production of temperate commercial maize and are combined to make heterotic hybrids. Comparison of these two assemblies revealed over 2500 genes present in only one of the two genotypes and 136 gene families that have undergone extensive expansion or contraction. Transcriptome profiling revealed extensive expression variation, with as many as 10,564 differentially expressed transcripts and 7128 transcripts expressed in only one of the two genotypes in a single tissue. Genotype-specific genes were more likely to have tissue/condition-specific expression and lower transcript abundance. The availability of a high-quality genome assembly for the elite maize inbred PH207 expands our knowledge of the breadth of natural genome and transcriptome variation in elite maize inbred lines across heterotic pools.
Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108 cnhirsch@umn.edu.
Candice N
0000-0002-8833-3023
CN
Hirsch
Department of Plant Pathology, University of Minnesota, St. Paul, Minnesota 55108.
Cory D
0000-0002-3409-758X
CD
Hirsch
Department of Agronomy and Plant Genetics, University of Minnesota, St. Paul, Minnesota 55108.
Alex B
0000-0002-4639-4119
AB
Brohammer
Department of Plant Biology, Michigan State University, East Lansing, Michigan 48824.
Megan J
0000-0001-5742-1779
MJ
Bowman
Calico Labs, San Francisco, California 94080.
Ilya
I
Soifer
NRGENE Ltd., Ness-Ziona 7403648, Israel.
Omer
O
Barad
NRGENE Ltd., Ness-Ziona 7403648, Israel.
Doron
D
Shem-Tov
NRGENE Ltd., Ness-Ziona 7403648, Israel.
Kobi
K
Baruch
Instiute for Genome Diversity, Cornell University, Ithaca, New York 14850.
Fei
F
Lu
Roy J. Carver Biotechnology Center, University of Illinois, Urbana, Illinois 61801.
Alvaro G
AG
Hernandez
Roy J. Carver Biotechnology Center, University of Illinois, Urbana, Illinois 61801.
Christopher J
0000-0002-7749-5844
CJ
Fields
Roy J. Carver Biotechnology Center, University of Illinois, Urbana, Illinois 61801.
Chris L
CL
Wright
Dow AgroSciences, Indianapolis, Indiana 46268.
Klaus
K
Koehler
Department of Plant Biology, University of Minnesota, St. Paul, Minnesota 55108.
Nathan M
0000-0002-7301-4759
NM
Springer
Instiute for Genome Diversity, Cornell University, Ithaca, New York 14850.|U.S. Department of Agriculture/Agricultural Research Services, Ithaca, New York 14850.
Edward
0000-0002-3100-371X
E
Buckler
Department of Plant Biology, Michigan State University, East Lansing, Michigan 48824.|DOE Great Lakes Bioenergy Research Center, East Lansing, Michigan 48824.
C Robin
CR
Buell
Department of Agronomy, University of Wisconsin-Madison, Madison, Wisconsin 53706.|DOE Great Lakes Bioenergy Research Center, Madison, Wisconsin 53706.
Natalia
N
de Leon
Department of Agronomy, University of Wisconsin-Madison, Madison, Wisconsin 53706.|DOE Great Lakes Bioenergy Research Center, Madison, Wisconsin 53706.
Shawn M
0000-0002-5964-1668
SM
Kaeppler
Department of Plant Biology, Michigan State University, East Lansing, Michigan 48824.|Center for Genomics-Enabled Plant Sciences, Michigan State University, East Lansing, Michigan 48824.
Kevin L
0000-0002-3680-062X
KL
Childs
Roy J. Carver Biotechnology Center, University of Illinois, Urbana, Illinois 61801.|Department of Crop Sciences, University of Illinois, Urbana, Illinois 61801.
Mark A
0000-0001-5364-0907
MA
Mikel
D020869:Gene Expression Profiling; D018506:Gene Expression Regulation, Plant / Q000235:genetics; D014644:Genetic Variation / Q000235:genetics; D018745:Genome, Plant / Q000235:genetics*; D059467:Transcriptome / Q000235:genetics*; D003313:Zea mays / Q000235:genetics*