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Table 3 Percentage of genes annotated as probable transposon genes expressed in gametophyte and sporophyte samples

From: Discovery of novel transcripts and gametophytic functions via RNA-seq analysis of maize gametophytic transcriptomes

 

Probable Transposon Genes in the Filtered Gene Set Expressed Above 0.1 FPKM (1.2% of total (456/39,635))

Probable Transposon Genes in the Working Gene Set Expressed Above 0.1 FPKM (3.3% of total (3,692/109,324))

All Seedling Expressed Genes

0.9% (259/27,564)

1.3% (426/33,528)

All Pollen Expressed Genes

1.0% (143/14,591)

1.4% (251/17,314)

All Embryo Sac Expressed Genes

1.1% (308/28,489)

2.3% (964/42,672)s,p,o

All Ovule (w/o Embryo Sac) Expressed Genes

1.0% (263/26,338)

1.6% (560/35,727)

Seedling enriched (2x higher than other three tissues)

0.7% (58/8,066)

0.8% (65/8,335)

Pollen enriched (2x higher than other three tissues)

1.3% (30/2,224)s

2.3% (82/3,526)s,o

Embryo Sac enriched (2x higher than other three tissues)

1.6% (83/5,011)s,o,t

4.4% (315/7,097)s,p,o,t

Ovule (w/o Embryo Sac) enriched (2x higher than other three tissues)

1.1% (19/1,751)

1.5% (85/5,475)

Dual Gametophyte enriched (Pollen and Embryo Sac each 2x higher than both sporophyte tissues)

2.0% (12/591)s,o,t

2.3% (10/434)s

  1. s = higher than equivalent seedling frequency at p ≤ 0.01.
  2. s = higher than equivalent seedling frequency at p ≤ 0.05.
  3. p = higher than equivalent pollen frequency at p ≤ 0.01.
  4. o = higher than equivalent ovule frequency at p ≤ 0.01.
  5. o = higher than equivalent ovule frequency at p ≤ 0.05.
  6. t = higher than total in gene set at p ≤ 0.01.
  7. t = higher than total gene set at p ≤ 0.05.