Engineered microbes and methods for microbial oil overproduction from cellulosic materials

1. An isolated oleaginous cell comprising a nucleic acid construct that increases expression of:

a xylose isomerase (XYLA) gene product, a xylose reductase (XYL1) gene product and a xylitol dehydrogenase (XYL2) gene product,

wherein the nucleic acid construct comprises an intron; and

a) an expression cassette comprising a nucleic acid sequence encoding the XYLA, XYL1, and XYL2 gene products under the control of a suitable homologous or heterologous promoter; and/or

b) a nucleic acid sequence that modulates the level of expression of the XYLA, XYL1, and XYL2 gene products when inserted into the genome of the cell.

2. The isolated oleaginous cell of claim 1 , further comprising a nucleic acid construct that increases expression of a xylulokinase (XYL3) gene product.

3. The isolated oleaginous cell of claim 1 , further comprising a nucleic acid construct that increases expression of a diacylglycerol acyltransferase (DGA) gene product, an acetyl-coA carboxylase (ACC) gene product, a stearoyl-CoA-desaturase (SCD) gene product, and/or an ATP-citrate lyase (ACL) gene product.

4. The isolated oleaginous cell of claim 1 , wherein the nucleic acid construct inhibits or disrupts the natural regulation of a native gene encoding the gene product resulting in overexpression of the native gene.

5. The isolated oleaginous cell of claim 1 , wherein the increased expression of the gene product confers a beneficial phenotype for the conversion of a carbon source to a fatty acid, fatty acid derivative and/or triacylglycerol (TAG) to the cell.

6. The isolated oleaginous cell of claim 5 , wherein the beneficial phenotype is a modified fatty acid profile, a modified TAG profile, an increased fatty acid and/or triacylglycerol synthesis rate, an increase conversion yield, an increased triacylglycerol accumulation in the cell, and/or an increased triacylglycerol accumulation in a lipid body of the cell.

7. The isolated oleaginous cell of claim 6 , wherein the synthesis rate, yield or accumulation of a fatty acid or a TAG of the cell is at least 2-fold increased as compared to unmodified cells of the same cell type.

8. The isolated oleaginous cell of claim 5 , wherein the cell converts a carbon source to a fatty acid or a TAG at a conversion rate within the range of about 0.025 g/g to about 0.32 g/g (g TAG produced/g Glucose consumed).

9. The isolated oleaginous cell of claim 1 , wherein the cell is an oleaginous yeast cell.

10. The isolated oleaginous cell of claim 1 , wherein the cell is a Y. lipolytica cell.

11. A culture, comprising the isolated oleaginous cell of claim 1 .

12. The culture of claim 11 , further comprising a carbon source.

13. The culture of claim 12 , wherein the carbon source comprises a fermentable sugar.

14. A method, comprising

contacting a carbon source with an isolated oleaginous cell of claim 1 , and

incubating the carbon source contacted with the cell under conditions suitable for at least partial conversion of the carbon source into a fatty acid or a triacylglycerol by the cell.

15. The method of claim 14 , wherein the carbon source is a fermentable sugar.

16. The method of claim 15 , wherein the fermentable sugar is a C5 and/or a C6 sugar.

17. A method for increasing productivity of production of fatty acid or triacylglycerol by an isolated oleaginous cell, comprising

culturing an isolated oleaginous cell of claim 1 with at least two types of carbon sources,

wherein the first type of carbon source contains or is xylose, and

wherein the second type of carbon source is a carbon source other than xylose,

whereby the productivity of production of fatty acid or triacylglycerol by an isolated oleaginous cell is improved relative to culturing the isolated oleaginous cell or the culture without the second type of carbon source.

18. The method of claim 17 , wherein the second type of carbon source contains or is a C2 carbon source, a C3 carbon source, a C5 carbon source other than xylose or a C6 carbon source.