SRX1045766 GSM1701496 SRP058967 SRS950974 GSM1701496 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701496 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701496 gds 301701496 GEO Accession GSM1701496 SRX1045767 GSM1701497 SRP058967 SRS950971 GSM1701497 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701497 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701497 gds 301701497 GEO Accession GSM1701497 SRX1045768 GSM1701498 SRP058967 SRS950972 GSM1701498 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701498 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701498 gds 301701498 GEO Accession GSM1701498 SRX1045769 GSM1701499 SRP058967 SRS950973 GSM1701499 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701499 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701499 gds 301701499 GEO Accession GSM1701499 SRX1045770 GSM1701500 SRP058967 SRS950970 GSM1701500 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701500 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701500 gds 301701500 GEO Accession GSM1701500 SRX1045771 GSM1701501 SRP058967 SRS950968 GSM1701501 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701501 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701501 gds 301701501 GEO Accession GSM1701501 SRX1045772 GSM1701502 SRP058967 SRS950969 GSM1701502 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701502 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701502 gds 301701502 GEO Accession GSM1701502 SRX1045773 GSM1701503 SRP058967 SRS950966 GSM1701503 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701503 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701503 gds 301701503 GEO Accession GSM1701503 SRX1045774 GSM1701504 SRP058967 SRS950967 GSM1701504 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701504 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701504 gds 301701504 GEO Accession GSM1701504 SRX1045775 GSM1701505 SRP058967 SRS950965 GSM1701505 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701505 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701505 gds 301701505 GEO Accession GSM1701505 SRX1045776 GSM1701506 SRP058967 SRS950964 GSM1701506 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701506 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701506 gds 301701506 GEO Accession GSM1701506 SRX1045777 GSM1701507 SRP058967 SRS950963 GSM1701507 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701507 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701507 gds 301701507 GEO Accession GSM1701507 SRX1045778 GSM1701508 SRP058967 SRS950962 GSM1701508 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701508 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701508 gds 301701508 GEO Accession GSM1701508 SRX1045779 GSM1701509 SRP058967 SRS950961 GSM1701509 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701509 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701509 gds 301701509 GEO Accession GSM1701509 SRX1045780 GSM1701510 SRP058967 SRS950960 GSM1701510 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701510 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701510 gds 301701510 GEO Accession GSM1701510 SRX1045781 GSM1701511 SRP058967 SRS950959 GSM1701511 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701511 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701511 gds 301701511 GEO Accession GSM1701511 SRX1045782 GSM1701512 SRP058967 SRS950958 GSM1701512 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701512 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701512 gds 301701512 GEO Accession GSM1701512 SRX1045783 GSM1701513 SRP058967 SRS950957 GSM1701513 RNA-Seq TRANSCRIPTOMIC cDNA RNA was extracted from fungal colonized wood sections prepared as described above. Samples, comprised of 20 sections each, were harvested after 40h (4 samples) and 96 hr (4 samples), immersed in liquid nitrogen and stored at -80C until extraction. For total RNA purification, wood sections were ground in prechilled mortar and pestle in liquid nitrogen. Autoclaved and prechilled glass beads (0.5mm) were used during the grinding to make the wood sections into fine powder. Following repeated phenol;chloroform extractions, RNA was ethanol precipitated at -20°C overnight and further purified using the RNeasy mini kit (Qiagen, Valencia, CA). Total RNA was DNAase treated according to the manufacture’s protocol. Messenger RNA was purified from 1μg total RNA using poly-T oligo-attached magnetic beads. Double-stranded cDNAs were synthesized using SuperScript II (Invitrogen, Carlsbad, California, USA) and random primers for first strand cDNA synthesis followed by second strand synthesis using DNA polymerase I and RNAse H for removal of mRNA. Double-stranded cDNA was purified using Agencourt AMPure XP beads (Qiagen, Valencia, California, USA) as recommended in the TruSeq RNA Sample Prep Guide. cDNAs were end-repaired by T4 DNA polymerase and Klenow DNA polymerase and phosphorylated with T4 polynucleotide kinase. The blunt ended cDNA was purified using Agencourt AMPure XP beads. The cDNA products were incubated with Klenow DNA polymerase to add an ‘A’ base (Adenine) to the 3’ end of the blunt phosphorylated DNA fragments and then purified using Agencourt AMPure XP beads. DNA fragments were ligated to Illumina adapters having a single ‘T’ base (Thymine) overhang at their 3’end. The adapter-ligated products were purified using Agencourt AMPure XP beads. Adapter ligated DNA was amplified in a Linker Mediated PCR reaction (LM-PCR) for 15 cycles using PhusionTM DNA polymerase and Illumina's PE genomic DNA primer set and then purified using Agencourt AMPure XP beads. Quality and quantity of the finished libraries were assessed using an Agilent DNA1000 series chip assay (Agilent Technologies, Santa Clara, CA) and Invitrogen Qubit HS Kit (Invitrogen, Carlsbad, California, USA), respectively, and libraries standardized to 2 μM. Illumina HiSeq 2000 GEO Sample GSM1701513 http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM1701513 gds 301701513 GEO Accession GSM1701513