Conversion of biomass to useful intermediates

A microbial cell comprising:

• a genetic modification resulting in the expression of a deficient form of an endogenous dioxygenase;
• and
• a gene encoding an exogenous dioxygenase, an exogenous dehydrogenase, and a promoter sequence, wherein:
• the endogenous dioxygenase comprises PcaH and PcaG,
• the exogenous dioxygenase comprises LigA and LigB,
• the exogenous dehydrogenase comprises LigC,
• the microbial cell is capable of growth utilizing at least one of a cellulose decomposition molecule or a lignin decomposition molecule, and
• the microbial cell is capable of producing 2-oxo-2H-pyran-4,6-dicarboxylic acid.

A microbial cell comprising:

• a first genetic modification resulting in the expression of a deficient form of an endogenous dioxygenase;
• a second genetic modification resulting in the expression of deficient forms of an endogenous tautomerase, an endogenous hydratase, and an endogenous decarboxylase;
• and
• a gene encoding an exogenous dioxygenase, an exogenous dehydrogenase, an exogenous hydrolase, and a promoter sequence, wherein:
• the endogenous dioxygenase comprises PcaH and PcaG,
• the endogenous tautomerase, the endogenous hydratase, and the endogenous decarboxylase comprise GalD, GalB, and GalC respectively,
• the exogenous dioxygenase comprises LigA and LigB,
• the exogenous dehydrogenase comprises LigC,
• the exogenous hydrolase comprises LigI,
• the microbial cell is capable of growth utilizing at least one of a cellulose decomposition molecule or a lignin decomposition molecule, and
• the microbial cell is capable of producing (1E,3E)-4-hydroxybuta-1,3-diene-1,2,4-tricarboxylic acid.

A microbial cell comprising:

• a first genetic modification resulting in the expression of a deficient form of an endogenous dioxygenase;
• a second genetic modification resulting in the expression of a deficient form of an endogenous tautomerase, an endogenous hydratase, and an endogenous decarboxylase;
• and
• a gene encoding an exogenous dioxygenase, an exogenous dehydrogenase, an exogenous hydrolase, an exogenous tautomerase, and a promoter sequence, wherein:
• the endogenous dioxygenase comprises PcaH and PcaG,
• the endogenous tautomerase, the endogenous hydratase, and the endogenous decarboxylase comprise GalD, GalB, and GalC respectively,
• the exogenous dioxygenase comprises LigA and LigB,
• the exogenous dehydrogenase comprises LigC,
• the exogenous hydrolase comprises LigI,
• the exogenous tautomerase comprises LigU,
• the microbial cell is capable of growth utilizing at least one of a cellulose decomposition molecule or a lignin decomposition molecule, and
• the microbial cell is capable of producing (1E)-4-oxobut-1-ene-1,2,4-tricarboxylic acid.

A microbial cell comprising:

• a first genetic modification resulting in the expression of a deficient form of an endogenous dioxygenase;
• a second genetic modification resulting in the expression of a deficient form of an endogenous tautomerase, an endogenous hydratase, and an endogenous decarboxylase;
• and
• a gene encoding an exogenous dioxygenase, an exogenous dehydrogenase, an exogenous hydrolase, an exogenous tautomerase, an exogenous hydratase, and a promoter sequence, wherein:
• the endogenous dioxygenase comprises PcaH and PcaG,
• the endogenous tautomerase, the endogenous hydratase, and the endogenous decarboxylase comprise GalD, GalB, and GalC respectively,
• the exogenous dioxygenase comprises LigA and LigB,
• the exogenous dehydrogenase comprises LigC,
• the exogenous hydrolase comprises LigI,
• the exogenous tautomerase comprises LigU,
• the exogenous hydratase comprises LigJ,
• the microbial cell is capable of growth utilizing at least one of a cellulose decomposition molecule or a lignin decomposition molecule, and
• the microbial cell is capable of producing 2-hydroxy-4-oxobutane-1,2,4-tricarboxylic acid.

A microbial cell comprising a genetic modification resulting in the expression of a deficient form of an endogenous enol-lactonase, a deficient form of an endogenous decarboxylase, and a deficient form of an endogenous cycloisomerase, wherein:

• the endogenous enol-lactonase comprises PcaD,
• the endogenous decarboxylase comprises PcaC,
• the endogenous cycloisomerase comprises PcaB,
• the microbial cell is capable of growth utilizing at least one of a cellulose decomposition molecule or a lignin decomposition molecule, and
• the microbial cell is capable of producing (1E,3Z)-buta-1,3-diene-1,2,4-tricarboxylic acid.

A microbial cell comprising a genetic modification resulting in the expression of a deficient form of an endogenous enol-lactonase and a deficient form of an endogenous decarboxylase, wherein:

• the endogenous enol-lactonase comprises PcaD,
• the endogenous decarboxylase comprises PcaC,
• the microbial cell is capable of growth utilizing at least one of a cellulose decomposition molecule or a lignin decomposition molecule, and
• the microbial cell is capable of producing 2-carboxy-5-oxo-2,5-dihydrofuran-2-carboxylic acid.

A microbial cell comprising:

• a genetic modification resulting in the expression of a deficient form of an endogenous dioxygenase;
• and
• a gene encoding an exogenous dioxygenase and a promoter sequence, wherein:
• the endogenous dioxygenase comprises PcaH and PcaG,
• the exogenous dioxygenase comprises PraA,
• the microbial cell is capable of growth utilizing at least one of a cellulose decomposition molecule or a lignin decomposition molecule, and
• the microbial cell is capable of producing (2E,4E)-2-formyl-5-hydroxyhexa-2,4-dienedioic acid.

A microbial cell comprising:

• a first genetic modification resulting in the expression of a deficient form of a first endogenous dioxygenase;
• a second genetic modification resulting in the expression of a deficient form of a second endogenous dioxygenase;
• a third genetic modification resulting in the expression of a deficient form of an endogenous muconate cycloisomerase, a deficient form of an endogenous muconolactone isomerase, and a deficient form of a third endogenous dioxygenase;
• a first gene encoding a first exogenous dioxygenase, an exogenous decarboxylase, and a first promoter sequence;
• and
• a second gene encoding a second exogenous dioxygenase and a second promoter sequence, wherein:
• the first endogenous dioxygenase comprises PcaH and PcaG,
• the second endogenous dioxygenase comprises CatA2,
• the endogenous muconate cycloisomerase comprises CatB,
• the endogenous muconolactone isomerase comprises CatC,
• the third endogenous dioxygenase comprises CatA,
• the first exogenous dioxygenase comprises PraA,
• the exogenous decarboxylase comprises PraH,
• the second exogenous dioxygenase comprises XylE,
• the microbial cell is capable of growth utilizing at least one of a cellulose decomposition molecule or a lignin decomposition molecule, and
• the microbial cell is capable of producing (2Z,4E)-2-hydroxy-6-oxohexa-2,4-dienoic acid.

A microbial cell comprising:

• a first genetic modification resulting in the expression of a deficient form of a first endogenous dioxygenase;
• a second genetic modification resulting in the expression of a deficient form of a second endogenous dioxygenase;
• a third genetic modification resulting in the expression of a deficient form of an endogenous muconate cycloisomerase, a deficient form of an endogenous muconolactone isomerase, and a deficient form of a third endogenous dioxygenase;
• a first gene encoding a first exogenous dioxygenase, an exogenous decarboxylase, and a first promoter sequence;
• and
• a second gene encoding a second exogenous dioxygenase, an exogenous dehydrogenase, and a second promoter sequence, wherein:
• the first endogenous dioxygenase comprises PcaH and PcaG,
• the second endogenous dioxygenase comprises CatA2,
• the endogenous muconate cycloisomerase comprises CatB,
• the endogenous muconolactone isomerase comprises CatC,
• the third endogenous dioxygenase comprises CatA,
• the first exogenous dioxygenase comprises PraA,
• the exogenous decarboxylase comprises PraH,
• the second exogenous dioxygenase comprises XylE,
• the exogenous dehydrogenase comprises XylG,
• the microbial cell is capable of growth utilizing at least one of a cellulose decomposition molecule or a lignin decomposition molecule, and
• the microbial cell is capable of producing (2Z,4E)-2-hydroxyhexa-2,4-dienedioic acid.

A microbial cell comprising:

• a first genetic modification resulting in the expression of a deficient form of a first endogenous dioxygenase;
• a second genetic modification resulting in the expression of a deficient form of a second endogenous dioxygenase;
• a third genetic modification resulting in the expression of a deficient form of an endogenous muconate cycloisomerase, a deficient form of an endogenous muconolactone isomerase, and a deficient form of a third endogenous dioxygenase;
• a first gene encoding a first exogenous dioxygenase, an exogenous decarboxylase, and a first promoter sequence;
• and
• a second gene encoding a second exogenous dioxygenase, an exogenous dehydrogenase, an exogenous tautomerase, and a second promoter sequence, wherein:
• the first endogenous dioxygenase comprises PcaH and PcaG,
• the second endogenous dioxygenase comprises CatA2,
• the endogenous muconate cycloisomerase comprises CatB,
• the endogenous muconolactone isomerase comprises CatC,
• the third endogenous dioxygenase comprises CatA,
• the first exogenous dioxygenase comprises PraA,
• the exogenous decarboxylase comprises PraH,
• the second exogenous dioxygenase comprises XylE,
• the exogenous dehydrogenase comprises XylG,
• the exogenous tautomerase comprises XylH,
• the microbial cell is capable of growth utilizing at least one of a cellulose decomposition molecule or a lignin decomposition molecule, and
• the microbial cell is capable of producing (3E)-2-oxohex-3-enedioic acid.

A microbial cell comprising:

• a first genetic modification resulting in the expression of a deficient form of a first endogenous dioxygenase;
• a second genetic modification resulting in the expression of a deficient form of a second endogenous dioxygenase;
• a third genetic modification resulting in the expression of a deficient form of an endogenous muconate cycloisomerase, a deficient form of an endogenous muconolactone isomerase, and a deficient form of a third endogenous dioxygenase;
• a first gene encoding a first exogenous dioxygenase, an exogenous decarboxylase, and a first promoter sequence;
• and
• a second gene encoding a second exogenous dioxygenase, an exogenous hydrolase, and a second promoter sequence, wherein:
• the first endogenous dioxygenase comprises PcaH and PcaG,
• the second endogenous dioxygenase comprises CatA2,
• the endogenous muconate cycloisomerase comprises CatB,
• the endogenous muconolactone isomerase comprises CatC,
• the third endogenous dioxygenase comprises CatA,
• the first exogenous dioxygenase comprises PraA,
• the exogenous decarboxylase comprises PraH,
• the second exogenous dioxygenase comprises XylE,
• the exogenous hydrolase comprises XylF,
• the microbial cell is capable of growth utilizing at least one of a cellulose decomposition molecule or a lignin decomposition molecule, and
• the microbial cell is capable of producing (2E)-2-hydroxypenta-2,4-dienoic acid.

A microbial cell comprising:

• a first genetic modification resulting in the expression of a deficient form of a first endogenous dioxygenase;
• a second genetic modification resulting in the expression of a deficient form of a second endogenous dioxygenase;
• a third genetic modification resulting in the expression of a deficient form of an endogenous muconate cycloisomerase, a deficient form of an endogenous muconolactone isomerase, and a deficient form of a third endogenous dioxygenase;
• a first gene encoding a first exogenous dioxygenase, an exogenous decarboxylase, and a first promoter sequence;
• and
• a second gene encoding a second exogenous dioxygenase, an exogenous dehydrogenase, an exogenous tautomerase, an exogenous hydrolase, an exogenous hydratase, an exogenous decarboxylase, and a second promoter sequence, wherein:
• the first endogenous dioxygenase comprises PcaH and PcaG,
• the second endogenous dioxygenase comprises CatA2,
• the endogenous muconate cycloisomerase comprises CatB,
• the endogenous muconolactone isomerase comprises CatC,
• the third endogenous dioxygenase comprises CatA,
• the first exogenous dioxygenase comprises PraA,
• the exogenous decarboxylase comprises PraH,
• the second exogenous dioxygenase comprises XylE,
• the exogenous dehydrogenase comprises XylG,
• the exogenous tautomerase comprises XylH,
• the exogenous hydrolase comprises XylF,
• the exogenous hydratase comprises XylJ,
• the exogenous decarboxylase comprises XylI,
• the microbial cell is capable of growth utilizing at least one of a cellulose decomposition molecule or a lignin decomposition molecule, and
• the microbial cell is capable of producing 4-hydroxy-2-oxopentanoic acid.