16. Sawant AA, Tanpure AA, Mukherjee PP,
Athavale S, Kelkar A, Galande S, Srivatsan SG
(2016) A versatile toolbox for posttranscriptional chemical labeling and imaging of RNA.
Nucleic Acids Res 44:e16
17. Nguyen K, Fazio M, Kubota M, Nainar S,
Feng C, Li X, Atwood SX, Bredy TW, Spitale
RC (2017) Cell-selective bioorthogonal metabolic labeling of RNA. J Am Chem Soc
139:2148–2151
18. Sawant AA, Galande S, Srivatsan SG (2018)
Imaging newly transcribed RNA in cells by
using a clickable azide-modified UTP analog.
Methods Mol Biol 1649:359–371
19. Zhang Y, Kleiner RE (2019) A metabolic engineering approach to incorporate modified
pyrimidine nucleosides into cellular RNA. J
Am Chem Soc 141:3347–3351. https://doi.
org/10.1021/jacs.8b11449
20. Defrancq E, Messaoudi S (2017) Palladiummediated labeling of nucleic acids. Chembiochem 18:426–443
21. Jbara M, Maity SK, Brik A (2017) Palladium in
the chemical synthesis and modification of proteins. Angew Chem Int Ed 56:10644–10655
22. George JT, Srivatsan SG (2017) Vinyluridine as
a versatile chemoselective handle for the posttranscriptional chemical functionalization of
RNA. Bioconjug Chem 28:1529–1536
23. Walunj MB, Sabale PM, Srivatsan SG (2018)
Advances in the application of Pd-mediated
transformations in nucleotides and oligonucleotides: palladium-catalyzed modification of
nucleosides, nucleotides and oligonucleotides.
Elsevier, Amsterdam, pp 269–293
24. Omumi A, Beach DG, Baker M, Gabryelski W,
Manderville RA (2011) Postsynthetic guanine
arylation of DNA by SuzukiÀMiyaura crosscoupling. J Am Chem Soc 133:42–50
25. Cahova ´ H, J€ aschke A (2013) Nucleoside-based
diarylethene photoswitches and their facile
incorporation into photoswitchable DNA.
Angew Chem Int Ed 52:3186–3190
26. Chalker JM, Wood CSC, Davis BG (2009) A
convenient catalyst for aqueous and protein
Suzuki–Miyaura cross-coupling. J Am Chem
Soc 131:16346–16347
27. Li N, Lim RKV, Edwardraja S, Lin Q (2011)
Copper-free Sonogashira cross-coupling for
functionalization of alkyne-encoded proteins
in aqueous medium and in bacterial cells. J
Am Chem Soc 133:15316–15319
28. Lercher L, McGouran JF, Kessler BM, Schofield CJ, Davis BG (2013) DNA modification
under mild conditions by Suzuki–Miyaura
cross-coupling for the generation of functional
probes. Angew Chem Int Ed 52:10553–10558
29. Walunj MB, Tanpure AA, Srivatsan SG (2018)
Posttranscriptional labeling by using SuzukiMiyaura cross-coupling generates functional
RNA probes. Nucleic Acid Res 46:e65
30. Yusop RM, Unciti-Broceta A, Johansson EMV,
Sa ´nchez-Martı ´n RM, Bradley M (2012)
Palladium-mediated intracellular chemistry.
Nat Chem 3:239–243
31. Pawar MG, Srivatsan SG (2011) Synthesis,
photophysical characterization, and enzymatic
incorporation of a microenvironment-sensitive
fluorescent uridine analog. Org Lett
13:1114–1117
32. Tanpure AA, Srivatsan SG (2011) A
microenvironment-sensitive fluorescent pyrimidine ribonucleoside analogue: synthesis, enzymatic
incorporation,
and
fluorescence
detection of a DNA abasic site. Chem Eur J
17:12820–12827
33. Yamaguchi T, Asanuma M, Nakanishi S,
Saito Y, Okazaki M, Dodo K, Sodeoka M
(2014) Turn-ON fluorescent affinity labeling
using a small bifunctional O-nitrobenzoxadiazole unit. Chem Sci 5:1021–1029
34. Boon WR (1952) 6- Dichloro-2-dimethylamino pyrimidine. J Chem Soc 1532
486
Manisha B. Walunj and Seergazhi G. Srivatsan
Athavale S, Kelkar A, Galande S, Srivatsan SG
(2016) A versatile toolbox for posttranscriptional chemical labeling and imaging of RNA.
Nucleic Acids Res 44:e16
17. Nguyen K, Fazio M, Kubota M, Nainar S,
Feng C, Li X, Atwood SX, Bredy TW, Spitale
RC (2017) Cell-selective bioorthogonal metabolic labeling of RNA. J Am Chem Soc
139:2148–2151
18. Sawant AA, Galande S, Srivatsan SG (2018)
Imaging newly transcribed RNA in cells by
using a clickable azide-modified UTP analog.
Methods Mol Biol 1649:359–371
19. Zhang Y, Kleiner RE (2019) A metabolic engineering approach to incorporate modified
pyrimidine nucleosides into cellular RNA. J
Am Chem Soc 141:3347–3351. https://doi.
org/10.1021/jacs.8b11449
20. Defrancq E, Messaoudi S (2017) Palladiummediated labeling of nucleic acids. Chembiochem 18:426–443
21. Jbara M, Maity SK, Brik A (2017) Palladium in
the chemical synthesis and modification of proteins. Angew Chem Int Ed 56:10644–10655
22. George JT, Srivatsan SG (2017) Vinyluridine as
a versatile chemoselective handle for the posttranscriptional chemical functionalization of
RNA. Bioconjug Chem 28:1529–1536
23. Walunj MB, Sabale PM, Srivatsan SG (2018)
Advances in the application of Pd-mediated
transformations in nucleotides and oligonucleotides: palladium-catalyzed modification of
nucleosides, nucleotides and oligonucleotides.
Elsevier, Amsterdam, pp 269–293
24. Omumi A, Beach DG, Baker M, Gabryelski W,
Manderville RA (2011) Postsynthetic guanine
arylation of DNA by SuzukiÀMiyaura crosscoupling. J Am Chem Soc 133:42–50
25. Cahova ´ H, J€ aschke A (2013) Nucleoside-based
diarylethene photoswitches and their facile
incorporation into photoswitchable DNA.
Angew Chem Int Ed 52:3186–3190
26. Chalker JM, Wood CSC, Davis BG (2009) A
convenient catalyst for aqueous and protein
Suzuki–Miyaura cross-coupling. J Am Chem
Soc 131:16346–16347
27. Li N, Lim RKV, Edwardraja S, Lin Q (2011)
Copper-free Sonogashira cross-coupling for
functionalization of alkyne-encoded proteins
in aqueous medium and in bacterial cells. J
Am Chem Soc 133:15316–15319
28. Lercher L, McGouran JF, Kessler BM, Schofield CJ, Davis BG (2013) DNA modification
under mild conditions by Suzuki–Miyaura
cross-coupling for the generation of functional
probes. Angew Chem Int Ed 52:10553–10558
29. Walunj MB, Tanpure AA, Srivatsan SG (2018)
Posttranscriptional labeling by using SuzukiMiyaura cross-coupling generates functional
RNA probes. Nucleic Acid Res 46:e65
30. Yusop RM, Unciti-Broceta A, Johansson EMV,
Sa ´nchez-Martı ´n RM, Bradley M (2012)
Palladium-mediated intracellular chemistry.
Nat Chem 3:239–243
31. Pawar MG, Srivatsan SG (2011) Synthesis,
photophysical characterization, and enzymatic
incorporation of a microenvironment-sensitive
fluorescent uridine analog. Org Lett
13:1114–1117
32. Tanpure AA, Srivatsan SG (2011) A
microenvironment-sensitive fluorescent pyrimidine ribonucleoside analogue: synthesis, enzymatic
incorporation,
and
fluorescence
detection of a DNA abasic site. Chem Eur J
17:12820–12827
33. Yamaguchi T, Asanuma M, Nakanishi S,
Saito Y, Okazaki M, Dodo K, Sodeoka M
(2014) Turn-ON fluorescent affinity labeling
using a small bifunctional O-nitrobenzoxadiazole unit. Chem Sci 5:1021–1029
34. Boon WR (1952) 6- Dichloro-2-dimethylamino pyrimidine. J Chem Soc 1532
486
Manisha B. Walunj and Seergazhi G. Srivatsan