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Table 2 Genes acquired via HGT in other cyst and root-knot nematodes also found in the genome of G. rostochiensis

From: The genome of the yellow potato cyst nematode, Globodera rostochiensis, reveals insights into the basis of parasitism and virulence

Process

Gene family

Function

Pfam domains

Highest AI

Reference

G. rostochiensis genes

Cell wall degradation

GH5_2 Cellulases

Cellulose degradation

PF00150

Cellulase (glycosyl hydrolase family 5)

198.94

[12]

GROS_g01454

GROS_g04677

GROS_g05961

GROS_g05962

GROS_g07338

GROS_g07446

GROS_g07949

GROS_g10505

GROS_g11008

GROS_g11200

GROS_g11949

Expansin-like proteins

Softening of non-covalent bonds

PF03330

Rare lipoprotein A (RlpA)-like double-psi beta-barrel

29.93

[90]

GROS_g03476

GROS_g09961

GROS_g10585

GROS_g11726

GROS_g11727

GROS_g12817

GROS_g12966

GH53 candidate Arabinogalactan endo-1,4-beta-galactosidase

Pectinose/arabinogalactan degradation

PF07745

Glycosyl hydrolase family 53

349.30

[91]

GROS_g08150

PL3 Pecate lyase

Pectin degradation

PF03211

Pectate lyase

137.06

[92, 93]

GROS_g04366

GROS_g05398

GROS_g07968

Plant defense manipulation

GH18 chitinase

Chitin degradation

PF00704

Glycosyl hydrolase family 18

2.30

[94]

GROS_g11136

Chorismate mutase

Conversion of Chorismate into SA

PF01817

Chorismate mutase type II

42.36

[95]

GROS_g02441

GROS_g08190

Candidate Isochorismatase

Conversion of Chorismate into SA

PF00857

Isochorismatase family

66.08

[96]

GROS_g01640

Detoxification

Candidate Cyanate lyase

 

PF02560

Cyanate lyase C-terminal domain

11.51

[17, 24]

GROS_g09531

Nutrient processing

GH32 invertase

Degradation of sucrose in glucose and fructose

PF00251

Glycosyl hydrolases family 32 N-terminal domain

241.26

[22, 23]

GROS_g05724

GROS_g06434

GROS_g08674

GROS_g09735

GROS_g09969

GROS_g10583

GROS_g11374

GROS_g11397

GROS_g11793

GROS_g13274

GROS_g14232

VB1 thiD

Vitamin B1 biosynthesis

PF08543

Phosphomethylpyrimidine kinase

154.50

[97]

GROS_g07352

VB1 thiE

Vitamin B1 biosynthesis

PF02581

Thiamine monophosphate synthase/TENI

163.99

[97]

GROS_g07353

VB1 thi4

Vitamin B1 biosynthesis

PF01946

Thi4 family

108.07

[97]

GROS_g10855

VB1 thiM

Vitamin B1 salvage

PF02110

46.05

[97]

GROS_g07354

Hydroxyethylthiazole kinase family

VB1 tenA

Vitamin B1 salvage

PF03070

108.33

[97]

GROS_g05327

TENA/THI-4/PQQC family

GROS_g07355

VB5 panC

Vitamin B5 biosynthesis

PF02569

183.11

[97]

GROS_g05752

Pantoate-beta-alanine ligase

VB6 aSNO

Vitamin B6 biosynthesis

PF01680

12.72

[98]

GROS_g08956

SOR/SNZ family

Candidate PolS Polyglutamate synthase

Not known

PF09587

102.00

[99]

GROS_g07961

Bacterial capsule synthesis protein PGA_cap

Candidate GSI Glutamine synthase

Nitrogen assimilation

PF00120

29.24

[100, 101]

GROS_g02362

Glutamine synthetase, catalytic domain

Feeding site induction

NodL - like

Candidate acetyltransferase

PF12464

Maltose acetyltransferase

13.12

[100, 102]

GROS_g11033

PF00132

Bacterial transferase hexapeptide (six repeats)

Not known

Candidate L-threonine aldolase

??

PF01212

Beta-eliminating lyase

164.69

[100]

GROS_g10421

GROS_g10422

GROS_g10423

Candidate Phosphorybosyl transferase

??

PF00156

Phosphoribosyl transferase domain

198.13

[100, 101]

GROS_g04632

GROS_g06735