Molecular Characterization and Gene Expression Profiling ... - CUSAT

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Chapter 3 Fig.3.20 Multiple alignment of nucleotide sequence of the F. indicus crustin-like antimicrobial peptide, Fi-crustin (GQ469987) with other shrimp crustins (P. monodon GQ334395, F. chinensis DQ097703, P. monodon EF654659, P. monodon EF654658, P. monodon FJ539177, P. monodon FJ539178, P. monodon FJ539174, P. monodon FJ539175, P. monodon FJ539176), obtained using GeneDoc programme Version 2.7.0. Black and grey indicates conserved sequences. Molecular Characterization and Gene Expression Profiling of Antimicrobial Peptides in Penaeid Shrimps 222
Chapter 3 Fig.3.21. Multiple alignment of deduced amino acid sequence of the F. indicus crustin-like antimicrobial peptide, Fi-crustin (GQ469987) with other shrimp crustins (P. monodon EF654658, P. monodon EF654659, P. monodon FJ539177, P. monodon FJ539178, P. monodon FJ539174, P. monodon FJ539175, P. monodon FJ539176, P. monodon GQ334395, F. chinensis DQ097703) obtained using GeneDoc programme Version 2.7.0. Black and grey indicates conserved sequences. Molecular Characterization and Gene Expression Profiling of Antimicrobial Peptides in Penaeid Shrimps 223
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Molecular Characterization and Gene
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Declaration I hereby do declare tha
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Acknowledgements This work was carr
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My Seniors, Dr. Annies Joseph, Dr.
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Contents Title Page Nos. 1 General
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in response to WSSV challenge 252-2
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α-2M Alpha-2-Macroglobulin ALF Ant
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ppA Prophenoloxidase-Activating Enz
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1.1 Introduction Chapter 1 Aquacult
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Chapter 1 the giant tiger shrimp (P
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Common names: Chapter 1 Giant tiger
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1.3.1. Diseases Chapter 1 Diseases
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Lymphoidal parvo-like virus (LPV) B
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Chapter 1 and protective occlusion
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Chapter 1 small brown masses in the
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1.4.6. Natural epidemics Chapter 1
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Chapter 1 can differentiate WSSV-in
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1.5.1.1. Probiotics Chapter 1 Alter
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Chapter 1 tried in P. monodon, resu
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Chapter 1 The first and essential i
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Chapter 1 1998). The innate immunit
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1.6.1 Haemocytes Chapter 1 The haem
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Chapter 1 In crustaceans, the sheet
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Chapter 1 Theopold et al., 2002). C
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Chapter 1 kill/remove the invading
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Chapter 1 forming complexes with a
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1.7 Antimicrobial Peptides (AMPs) 1
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Chapter 1 the response is very fast
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Chapter 1 Hirsch, 1947). While they
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Chapter 1 AMPs to various degrees u
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1.7.5 Biological activity Chapter 1
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Chapter 1 including the microbes as
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Tachyplesin I Chapter 1 Crustacea P
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Anionic and cationic peptides that
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Anionic and Cationic AMPs with cyst
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Chapter 1 Fig. 1.7. Structural clas
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Chapter 1 Group III: Linear peptide
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Chapter 1 through regular processes
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Chapter 1 ultimately signal to tran
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Chapter 1 divalent polyanionic cati
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Chapter 1 type of transmembrane por
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Chapter 1 other intracellular targe
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Chapter 1 Apidaecin, a short, proli
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Chapter 1 Hultmark, 1987; Gennaro a
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Chapter 1 quite opposite characteri
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Chapter 1 depletion of mitochondria
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Chapter 1 conformations adopted by
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Chapter 1 receptor may be a potenti
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Chapter 1 exposure to their targets
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Chapter 1 generating a rich spectru
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Chapter 1 by enkelytin (Goumon et a
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Lactoferricin Cow Mastitis control
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Chapter 1 trial, in which peptide T
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Chapter 1 a too limited spectrum to
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Chapter 1 number of research groups
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CHAPTER-2 Molecular Characterizatio
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Chapter 2 interaction with negative
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Chapter 2 inhibit the endotoxin or
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Chapter 2 structure be modified to
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Chapter 2 and the region might be l
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Chapter 2 been made of the spectra
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Chapter 2 their discovery and initi
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Chapter 2 terminal pyroglutamic aci
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Chapter 2 One can assume that the p
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Chapter 2 by degranulation into the
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2.2. Materials and Methods 2.2.1. E
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Chapter 2 washed by adding 1 ml 75
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Chapter 2 entry of recombinant DNA
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Chapter 2 and the deduced amino aci
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Chapter 2 Fenneropenaeus, Litopenae
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2.3.1.3. Crustin-1 (GQ334395) Chapt
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2.3.1.3.5. Phylogenetic analysis of
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Chapter 2 sequence also showed high
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Chapter 2 chinensis and F. indicus
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Chapter 2 monodon and Group III of
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Chapter 2 Tiger shrimp (P. monodon)
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Chapter 2 ALF-1 was a partial seque
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Chapter 2 As mentioned before, the
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Chapter 2 Munoz et al., 2004). The
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Table 2.1. Primers used for the stu
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Table 2.4. BLASTn analysis of ALF-2
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Table 2.8. BLASTn analysis of Crust
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Table 2.12. BLASTn analysis of Pena
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Fig.2.5. Agarose gel electrophoreto
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Chapter 2 Fig.2.9. Multiple alignme
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Chapter 2 Fig. 2.12 A bootstrapped
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Chapter 2 Fig. 2.15. Multiple align
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Chapter 2 Fig.2.18. A bootstrapped
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Chapter 2 Fig.2.20. Signal peptide
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Chapter 2 Fig.2.24 Multiple alignme
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Chapter 2 LITOPENAEUS SP. FARFANTEP
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Chapter 2 Fig. 2.28. Nucleotide and
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Chapter 2 Fig.2.33 Multiple alignme
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Chapter 2 LITOPENAEUS SP. FENNEROPE
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Page 191 and 192: Chapter 2 Fig.2.41 Multiple alignme
Page 193 and 194: Chapter 2 Fig.2.43 A bootstrapped n
Page 195 and 196: Chapter 2 Fig. 2.45. Nucleotide and
Page 197 and 198: Chapter 2 LITOPENAEUS SP. FENNEROPE
Page 199 and 200: Chapter 2 Fig.2.51 Signal peptide a
Page 201 and 202: Chapter 2 FENNEROPENAEUS SP. FARFAN
Page 203 and 204: CHAPTER-3 Molecular Characterizatio
Page 205 and 206: Chapter 3 certainly help us to unra
Page 207 and 208: Chapter 3 3.3.1.1. Anti-lipopolysac
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Page 211 and 212: Chapter 3 random coiled structure t
Page 213 and 214: 3.3.1.3.5. Phylogenetic analysis of
Page 215 and 216: Chapter 3 case has been reported in
Page 217 and 218: Chapter 3 Multiple alignments were
Page 219 and 220: Chapter 3 negative bacteria. In shr
Page 221 and 222: Chapter 3 indicated a random coiled
Page 223 and 224: Chapter 3 horseshoe crab big defens
Page 225 and 226: Table 3.4. BLASTn analysis of ALF-2
Page 227 and 228: Table.3.8. BLASTn analysis of Fi-pe
Page 229 and 230: Chapter 3 Fig.3.2. Nucleotide and a
Page 231 and 232: Chapter 3 Fig.3.5. Multiple alignme
Page 233 and 234: Chapter 3 Fig.3.8. Nucleotide and a
Page 235 and 236: Chapter 3 Fig.3.12. Multiple alignm
Page 237 and 238: Chapter 3 Fig.3.14. A bootstrapped
Page 239: Chapter 3 Fig.3.17. Signal peptide
Page 243 and 244: SHRIMPS KIND CRAB LOBSTERS CRABS Ch
Page 245 and 246: Chapter 3 Fig.3.25. Signal peptide
Page 247 and 248: Chapter 3 Fig. 3.28. Multiple align
Page 249 and 250: PENAEIDIN-2 Chapter 3 PENAEIDIN- 3
Page 251 and 252: Fig.3.31. Nucleotide and amino acid
Page 253 and 254: Chapter 3 Fig.3.35. Multiple alignm
Page 255 and 256: Chapter 3 Fig.3.37 Nucleotide and a
Page 257 and 258: 4.1. Introduction Chapter 4 The aqu
Page 259 and 260: Chapter 4 appearance and have major
Page 261 and 262: Chapter 4 the tissues has recently
Page 263 and 264: Chapter 4 with the ability of shrim
Page 265 and 266: Chapter 4 with a low dose of WSSV b
Page 267 and 268: Chapter 4 molecules they are likely
Page 269 and 270: Chapter 4 for understanding gene ex
Page 271 and 272: Chapter 4 4.3.2. Expression profile
Page 273 and 274: Expression profile of endonuclease
Page 275 and 276: Chapter 4 bacterial and fungal infe
Page 277 and 278: Chapter 4 measuring TSV and YHV loa
Page 279 and 280: Chapter 4 Of particular interest he
Page 281 and 282: Chapter 4 large distribution and ab
Page 283 and 284: Chapter 4 WSSV genes viz. endonucle
Page 285 and 286: Table 4.2. Primers used for the stu
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(A) (B) B 28 1 2 3 4 5 6 7 8 9 10 C
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(A) (B) B 28 1 2 3 4 5 6 7 8 9 10 C
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(A) (B) B 28 1 2 3 4 5 6 7 8 9 10 F
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(A) (B) B 28 1 2 3 4 5 6 7 8 9 10 C
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(A) (B) B 28 1 2 3 4 5 6 7 8 9 10 C
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(A) (B) B 28 1 2 3 4 5 6 7 8 9 10 C
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CHAPTER-5 Expression Profile of Ant
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Chapter 5 1994). The emergence of b
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Chapter 5 (Bovill et al., 2001). In
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5.2.2. Test diets Chapter 5 Four ex
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5.2.2.4. Preparation of Glucan inco
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Chapter 5 genes (latency related ge
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Chapter 5 On WSSV challenge, crusti
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Chapter 5 5.3.4. Expression profile
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5.3.4.5. Expression profile of pena
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Chapter 5 must firstly rest on a so
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Chapter 5 For the present study two
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Chapter 5 ameobocytes of two marine
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Chapter 5 variation in expression o
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Chapter 5 It has been previously sh
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Chapter 5 manifested in terms of gr
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(A) (B) (C) C CHY CSY CHG CSG C CHY
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(A) (B) -VE CTRL +VE CTRL CHG CSG C
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(A) PRE-CHALLENGE (B) POST-CHALLENG
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(A) PRE-CHALLENGE (B) (C) (D) CONTR
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(C) (D) (A) PRE-CHALLENGE (B) CONTR
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(A) (B) G M HP HR I Chapter 5 Fig.
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Chapter 5 Fig. 5.26. Post challenge
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6.1. Introduction Chapter 6 Prophyl
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Chapter 6 production of inhibitory
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6.2. Materials and methods 6.2.1. E
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Chapter 6 tissue cDNA was performed
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Chapter 6 gene was supported by Bac
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Chapter 6 treated group of shrimps.
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Chapter 6 the gene was found to be
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Chapter 6 found to support minimum
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Chapter 6 is induced upon bacterial
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Chapter 6 all the target genes, exc
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Chapter 6 Detailed tissue-wise anal
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Chapter 6 Gills and intestine was f
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(A) (B) Fig. 6.1. Experimental diet
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(A) (B) (C) Fig. 6.3. Expression pr
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(A) (B) (C) C B M BM C B M BM Fig.
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(A) (B) (C) Fig. 6.7. Expression pr
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(A) (B) (C) Chapter 6 Fig. 6.9. Exp
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(A) (B) -VE CTRL +VE CTRL B M BM Ch
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(A) (C) (D) PRE-CHALLENGE POST-CHAL
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(A) (B) G M HP HR I Chapter 6 Fig.
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Chapter 6 Fig. 6.27. Post challenge
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7.1. Summary Chapter 7 Tropical shr
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Salient findings Chapter 7 � From
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Chapter 7 � Tissue-wise expressio
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Chapter 7 application in shrimp cul
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References Aboudy, Y., Mendelson, E
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References Anggraeni, M.S., Owens,
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References Bals, R., Wang, X., Zasl
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References derived from the N-termi
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References Breukink, E., de Kruijff
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References Burgents, J.E., Burnett,
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References 1,3-β-D-glucan-binding
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References Chen, J.Y., Chuang, H.,
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References Cole, A.M., Hong, T., Bo
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References Dathe, M., Wieprecht, T.
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References Diamond, G., Zasloff, M.
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References Faber, C., Stallmann, H.
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References Flint, S.J., Enquist, L.
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References Gennaro, R., Zanetti, M.
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References Gudmundsson, G.H., Lidho
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References Harwig, S.S., Swiderek,
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References Hirakura, Y., Kobayashi,
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References Huang, C.C., Song, Y.L.
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References Itami, T., Takahashi, Y.
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References Jiravanichpaisal, P. Whi
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References Kang, J.H., Shin, S.Y.,
Page 461 and 462:
References Kono, T., Savan, R., Sak
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References rich peptide derived fro
Page 465 and 466:
References Li, L., Wang, J.X., Zhao
Page 467 and 468:
References Liu, C.H., Cheng, W., Ku
Page 469 and 470:
References Lorenzon, S., de Guarrin
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References Marone, M., Mozzetti, S.
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References Medvinsky, A., Dzierzak,
Page 475 and 476:
References Moriarty, D.J.W. 1996. M
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References antimicrobial peptide fr
Page 479 and 480:
References Otta, S.K., Karunasagar,
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References simplex virus has heptad
Page 483 and 484:
References infected shrimp. Thesis
Page 485 and 486:
References Litopenaeus vannamei cha
Page 487 and 488:
References Roth, B.L., Poot, M., Yu
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References Sathish, S., Musthaq, S.
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References a proline-arginine-rich
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References Smith, V.J., Fernandes,
Page 495 and 496:
References Song, Y.L., Cheng, W., W
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References experimental system. In:
Page 499 and 500:
References the black tiger shrimp P
Page 501 and 502:
References Tapay, L.M., Cesar, E.,
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References Touhy, K.M., Probert, H.
Page 505 and 506:
References van Hulten, M.C., Reijns
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References Vives, R.R., Imberty, A.
Page 509 and 510:
References Wang, Y.C., Chang, P.S.,
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References Williams, M.J., Rodrigue
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References Wu, W., Zong, R., Xu, J.
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References Yodmuang, S., Tirasophon
Page 517 and 518:
References Zhan, W.B., Wang, Y.H. 1
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Penaeus monodon anti-lipopolysaccha
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Penaeus monodon crustin-like antimi
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Penaeus monodon crustin-like antimi
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Penaeus monodon penaeidin-like anti
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Penaeus monodon elongation factor m
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Fenneropenaeus indicus anti-lipopol
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Fenneropenaeus indicus penaeidin-li
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Fenneropenaeus indicus beta-actin m
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PUBLICATIONS
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Short sequence report Molecular cha
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Fig. 2. Multiple alignment of nucle
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220 The phylogenetic relationships
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Table 1 Rearing conditions and wate
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5 ′ cttgtggttgacaatggctccg3
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Expression of WSSV genes in the hae
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Fig. 4. Expression profile of crust
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S.P. Antony et al. / Immunobiology
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