Pilgrims axe Thompson
Midlands-based businessman Jon Sotnick completed a takeover of the club on Thursday and he has wasted little time in stamping his authority on the York Street club.
Former York City stalwart Thompson had been in charge of team affairs since October 2002, but he has paid the price for the club's slide down the table.
Chief executive Dave Pickett has followed Thompson out of the York Street exit door.
Thompson became boss of the Pilgrims after Steve Evans was banned and fined by the FA for contractual discrepancies.
Boston are sat perilously near the relegation places and it would appear Sotnick wants a change of direction.
Jim Rodwell has been placed in temporary charge of team affairs, starting with the weekend clash with Cheltenham, while the board consider their options.
Former boss Evans has been linked with a return to York Street and Sotnick refused to rule out the possibility of him taking charge again.
"The new working board will collate all applications for the post of Boston United manager," confirmed Sotnick.
"Steve is abroad at the moment and I am not able to say if he will be putting his hat into the ring.
"But he can't be ruled out.
"What I will say is he is performing a vital role for one of my companies (Hemmingway Employment) and I would like him to continue."
Commenting on Thompson's departure, Sotnick added: "I am sure all the supporters would join me in thanking Neil for all of his efforts in his time at the club, in which he has helped to maintain United's survival in The Football League under sometimes very difficult circumstances.
"He has been well-liked and respected at the club and I wish him every success in the future. We have different visions for Boston United and agreed this was the best way for Neil to go."
Thompson has expressed disappointment at being removed from the helm.
"I am extremely disappointed, but would like to take this chance to thank the members of staff for their support," commented Thompson.